WO2019226931A1 - Penicillin-binding protein inhibitors - Google Patents

Penicillin-binding protein inhibitors Download PDF

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Publication number
WO2019226931A1
WO2019226931A1 PCT/US2019/033813 US2019033813W WO2019226931A1 WO 2019226931 A1 WO2019226931 A1 WO 2019226931A1 US 2019033813 W US2019033813 W US 2019033813W WO 2019226931 A1 WO2019226931 A1 WO 2019226931A1
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WIPO (PCT)
Prior art keywords
optionally substituted
compound
heterocycloalkyl
heteroaryl
iib
Prior art date
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PCT/US2019/033813
Other languages
French (fr)
Inventor
Christopher J. Burns
Denis Daigle
Guo-Hua Chu
Jodie HAMRICK
Steven A. Boyd
Allison L. Zulli
Eugen F. Mesaros
Stephen M. Condon
Robert E. Lee TROUT
Cullen L. MYERS
Zhenrong Xu
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VenatoRx Pharmaceuticals, Inc.
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by VenatoRx Pharmaceuticals, Inc. filed Critical VenatoRx Pharmaceuticals, Inc.
Priority to EP19807411.4A priority Critical patent/EP3802551A4/en
Priority to US17/057,593 priority patent/US20210198288A1/en
Priority to CN201980049454.9A priority patent/CN112469725A/en
Publication of WO2019226931A1 publication Critical patent/WO2019226931A1/en

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    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P31/00—Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
    • A61P31/04—Antibacterial agents
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07F—ACYCLIC, CARBOCYCLIC OR HETEROCYCLIC COMPOUNDS CONTAINING ELEMENTS OTHER THAN CARBON, HYDROGEN, HALOGEN, OXYGEN, NITROGEN, SULFUR, SELENIUM OR TELLURIUM
    • C07F5/00—Compounds containing elements of Groups 3 or 13 of the Periodic Table
    • C07F5/02—Boron compounds
    • C07F5/025—Boronic and borinic acid compounds

Definitions

  • Antibiotics are the most effective drugs for curing bacteria-related infectious diseases clinically. They are incredibly valuable therapeutic options that are currently losing efficacy due to the evolution and spread of drug resistance genes, leading to multidrug resistance bacterial organisms.
  • the penicillin-binding protein-targeting beta-lactams e.g. penicillins, cephalosporins, and carbapenems
  • penicillins, cephalosporins, and carbapenems are the most widely used antibiotic class because they have a strong bactericidal effect and low associated toxicity.
  • Penicillin Binding Proteins are a family of essential bacterial enzymes involved in the synthesis of peptidoglycan, the major structural polymer found in the bacterial cell wall. Beta- lactam antibiotics bind with high affinity to PBPs and inhibit their transpeptidase function, resulting in disruption of peptidoglycan cell wall synthesis and rapid cell lysis of actively dividing bacteria. As there are no close mammalian homologues to PBPs, and beta-lactams are well-regarded for their safety and efficacy, PBPs represent an ideal target for antibacterials. SUMMARY OF THE INVENTION
  • Described herein are compounds that inhibit the activity of penicillin-binding proteins, the bacterial enzyme class targeted by the beta lactam antibiotics and do provide significant antibacterial activity in vitro.
  • L 1 is -(CR 1 R 2 ) n -;
  • L 2 is -(CR 1 R 2 ) m -;
  • a 1 is
  • Ring A is a 6-membered aryl or a 6-membered heteroaryl
  • R 1 and R 2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl
  • R 8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • each R 20 and R 21 is independently hydrogen, halogen, or optionally substituted alkyl;
  • R 22 and R 23 are independently hydrogen or optionally substituted alkyl
  • R 22 and R 23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl
  • R 24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
  • heterocycloalkyl optionally substituted aryl, or optionally substituted heteroaryl
  • R 25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • R 30 and R 31 , or R 50 and R 51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
  • R 32 and R 33 , or R 52 and R 53 , or R 82 and R 83 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
  • R 34 , R 54 , and R 84 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 35 and R 55 are independently hydrogen, optionally substituted alkyl, optionally substituted
  • cycloalkyl optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 36 and R 56 are independently hydrogen, -OH, -OR 24 , -CN, -NO 2 , -NR 22 R 23 , or optionally
  • each R 60 is independently -CH 2 -, -CH(CH 3 )-, -C(CH 3 ) 2 -, or optionally substituted 1,1’- cyclopropylene;
  • each R 61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
  • R 74 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
  • R a , R b , and R c are independently hydrogen, halogen, cyano, optionally substituted alkyl,
  • optionally substituted alkyl optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
  • each R e is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
  • R X is optionally substituted alkyl or optionally substituted cycloalkyl
  • X 1 and X 2 are independently -OH, -OR X , or F; or
  • X 1 and X 2 are taken together with the boron atom to which they are attached to form a cyclic boronate ester;
  • T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl
  • Q is a pharmaceutically acceptable counterion
  • n 0-3;
  • n 0-3;
  • p 1-3;
  • each q is independently 2-6;
  • each v is independently 1-5;
  • each w is independently 2-5.
  • G is -NR 8 -, -C(R 10 ) 2 -, or -C(R 10 ) 2 NR 8 -;
  • L 1 is -(CR 1 R 2 ) n -;
  • L 2 is -(CR 1 R 2 ) m -;
  • a 1 is
  • Ring A is a 6-membered aryl or a 6-membered heteroaryl ;
  • R 8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • substituted heterocycloalkyl optionally substituted aryl, or optionally substituted heteroaryl;
  • R 8 and R 9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl
  • each R 10 is independently hydrogen, halogen, or optionally substituted alkyl
  • each R 20 and R 21 is independently hydrogen, halogen, or optionally substituted alkyl
  • R 22 and R 23 are independently hydrogen or optionally substituted alkyl
  • R 22 and R 23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl
  • R 24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
  • heterocycloalkyl optionally substituted aryl, or optionally substituted heteroaryl
  • R 25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • R 30 and R 31 , or R 50 and R 51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
  • R 32 , R 33 , R 52 , and R 53 are independently hydrogen, optionally substituted alkyl, optionally
  • R 33 or R 52 and R 53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl
  • R 34 , and R 54 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 35 and R 55 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 36 and R 56 are independently hydrogen, -OH, -OR 24 , -CN, -NO 2 , -NR 22 R 23 , or optionally substituted alkyl;
  • each R 60 is independently -CH 2 -, -CH(CH 3 )-, -C(CH 3 ) 2 -, or optionally substituted 1,1’- cyclopropylene;
  • each R 61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
  • R 90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
  • each R 91 is independently hydrogen, halogen, -OH, -CN, NH 2 , NO 2 , optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R a , R b , and R c are independently hydrogen, halogen, cyano, optionally substituted alkyl,
  • optionally substituted alkyl optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
  • each R e is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
  • R X is optionally substituted alkyl or optionally substituted cycloalkyl
  • X 1 and X 2 are independently -OH, -OR X , or F; or
  • X 1 and X 2 are taken together with the boron atom to which there are attached to form a cyclic boronate ester;
  • T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl
  • Q is a pharmaceutically acceptable counterion
  • n 0-3;
  • n 0-3;
  • p 1-3;
  • each q is independently 2-6;
  • u1 is 1-3
  • u2 is 1-3;
  • each v is independently 1-5;
  • each w is independently 2-5.
  • composition comprising a compound disclosed herein and a pharmaceutically acceptable excipient.
  • Also disclosed herein is a method of treating a bacterial infection in a subject, comprising administering to the subject an effective amount of a compound disclosed herein, or a
  • Also disclosed herein is method of inhibiting a bacterial penicillin binding protein in a human infected with a bacterial infection, comprising contacting said bacterial penicillin binding protein with an effective amount of compound disclosed herein, or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, or a pharmaceutical composition comprising a compound disclosed herein and a pharmaceutically acceptable excipient.
  • beta-lactam antibiotics Over the decades of clinical use of beta-lactam antibiotics, bacteria have evolved resistance mechanisms that compromise beta-lactam utility, including production of easily transferable, broad- spectrum beta-lactamases that are able to efficiently hydrolyze the beta lactam ring. These enzymes, now counting >1300 variants, have spread throughout Enterobacteriaceae. The rapid spread of this mechanism of bacterial resistance severely limits beta-lactam therapeutic options.
  • Novel non-beta-lactam compounds that inhibit the transpeptidase function of PBPs and are not degraded by beta-lactamases would represent a major advance in the treatment of resistant bacterial infections, essentially circumventing >70 years of bacterial evolution to protect the function of the penicillin-binding proteins in cell wall biosynthesis.
  • the present invention is directed to certain boron-based compounds (boronic acids and cyclic boronic acid esters) which are PBP inhibitors and antibacterial compounds.
  • the compounds and their pharmaceutically acceptable salts are useful for the treatment of bacterial infections, particularly antibiotic resistant bacterial infections.
  • Some embodiments include compounds, compositions, pharmaceutical compositions, use, and preparation thereof.
  • antibiotic refers to a compound or composition which decreases the viability of a microorganism, or which inhibits the growth or proliferation of a microorganism.
  • the phrase“inhibits the growth or proliferation” means increasing the generation time (i.e., the time required for the bacterial cell to divide or for the population to double) by at least about 2-fold.
  • Preferred antibiotics are those which can increase the generation time by at least about 10-fold or more (e.g., at least about 100-fold or even indefinitely, as in total cell death).
  • an antibiotic is further intended to include an antimicrobial, bacteriostatic, or bactericidal agent. Examples of antibiotics suitable for use with respect to the present invention include penicillins, cephalosporins, and carbapenems.
  • b-lactam antibiotic refers to a compound with antibiotic properties that contains a b-lactam functionality.
  • Non-limiting examples of b-lactam antibiotics useful with respect to the invention include penicillins, cephalosporins, penems, carbapenems, and monobactams.
  • b-lactamase denotes a protein capable of inactivating a b-lactam antibiotic.
  • the b-lactamase can be an enzyme which catalyzes the hydrolysis of the b-lactam ring of a b-lactam antibiotic.
  • microbial b-lactamases are microbial b-lactamases.
  • the b-lactamase may be, for example, a serine b-lactamase or a metallo-b-lactamase.
  • Amino refers to the -NH 2 substituent.
  • Alkyl refers to a linear or branched hydrocarbon chain, which is fully saturated. Alkyl may have from one to thirty carbon atoms. An alkyl comprising up to 30 carbon atoms is referred to as a C 1 -C 30 alkyl, likewise, for example, an alkyl comprising up to 12 carbon atoms is a C 1 -C 12 alkyl. An alkyl comprising up to 6 carbons is a C 1 -C 6 alkyl.
  • Alkyl groups include, but are not limited to, C 1 - C 30 alkyl, C 1 -C 20 alkyl, C 1 -C 15 alkyl, C 1 -C 10 alkyl, C 1 -C 8 alkyl, C 1 -C 6 alkyl, C 1 -C 4 alkyl, C 1 -C 3 alkyl, C 1 -C 2 alkyl, C 2 -C 8 alkyl, C 3 -C 8 alkyl, C 4 -C 8 alkyl, and C 5 -C 12 alkyl.
  • the alkyl group is C 1 -C 6 alkyl.
  • Representative alkyl groups include, but are not limited to, methyl, ethyl, n- propyl, 1-methylethyl (isopropyl), n-butyl, i-butyl, s-butyl, n-pentyl, 1,1-dimethylethyl (t-butyl), 2- ethylpropyl, and the like.
  • Representative linear alkyl groups include, but are not limited to, methyl, ethyl, n-propyl, n-butyl, n-pentyl and the like.
  • the alkyl is substituted with an optionally substituted aryl to form an optionally substituted aralkyl.
  • the alkyl is substituted with an optionally substituted heteroaryl to form an optionally substituted heteroarylalkyl. In some embodiments, the alkyl is substituted with an optionally substituted cycloalkyl to form an optionally substituted cycloalkylalkyl. In some embodiments, the alkyl is substituted with an optionally substituted heterocycloalkyl to form an optionally substituted heterocycloalkylalkyl.
  • the alkyl group is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, haloalkyl, alkoxy, aryl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like.
  • the alkyl is optionally substituted with oxo, halogen, -CN, -CF 3 , -OH, -OMe, -NH 2 , or - NO 2 .
  • the alkyl is optionally substituted with oxo, halogen, -CN, -CF 3 , -OH, or -OMe.
  • the alkyl is optionally substituted with halogen.
  • alkenyl refers to a straight or branched hydrocarbon chain, containing at least one carbon-carbon double bond.
  • alkenyl comprises two to twelve (C 2 -C 12 alkenyl) carbon atoms, or two to eight carbon atoms (C 2 -C 8 alkenyl), or two to six carbon atoms (C 2 -C 6 alkenyl) or two to four carbon atoms (C 2 -C 4 alkenyl).
  • the alkenyl may be attached to the rest of the molecule by a single bond, for example, ethenyl (i.e., vinyl), prop-1-enyl (i.e., allyl), but-1-enyl, pent- 1-enyl, penta-1,4-dienyl, and the like.
  • the alkenyl group is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, haloalkyl, alkoxy, aryl, cycloalkyl,
  • the alkenyl is optionally substituted with oxo, halogen, -CN, -CF 3 , -OH, -OMe, -NH 2 , or -NO 2 . In some embodiments, the alkenyl is optionally substituted with oxo, halogen, -CN, -CF 3 , -OH, or -OMe. In some embodiments, the alkenyl is optionally substituted with halogen.
  • alkynyl refers to a straight or branched hydrocarbon chain group, containing at least one carbon-carbon triple bond.
  • alkynyl comprises two to twelve (C 2 -C 12 alkynyl) carbon atoms, or two to eight carbon atoms (C 2 -C 8 alkynyl), or two to six carbon atoms (C 2 -C 6 alkynyl) or two to four carbon atoms (C 2 -C 4 alkynyl).
  • the alkynyl may be attached to the rest of the molecule by a single bond, for example, ethynyl, propynyl, butynyl, pentynyl, hexynyl, and the like.
  • the alkynyl group is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, haloalkyl, alkoxy, aryl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like.
  • the alkynyl is optionally substituted with oxo, halogen, -CN, -CF 3 , -OH, -OMe, -NH 2 , or -NO 2 . In some embodiments, the alkynyl is optionally substituted with oxo, halogen, -CN, - CF 3 , -OH, or -OMe. In some embodiments, the alkynyl is optionally substituted with halogen.
  • Alkylene or“alkylene chain” refers to a straight or branched divalent hydrocarbon chain linking the rest of the molecule to a radical group, consisting solely of carbon and hydrogen, containing no unsaturation and having, for example, from one to twelve carbon atoms (C 1 -C 12 alkylene),e.g., methylene, ethylene, propylene, n-butylene, and the like.
  • the alkylene chain is attached to the rest of the molecule through a single bond and to the radical group through a single bond.
  • the points of attachment of the alkylene chain to the rest of the molecule and to the radical group are through one carbon in the alkylene chain or through any two carbons within the chain.
  • an alkylene comprises one to eight carbon atoms (C 1 -C 8 alkylene), or one to five carbon atoms (C 1 -C 5 alkylene), or one to four carbon atoms (C 1 -C 4 alkylene), or one to three carbon atoms (C 1 -C 3 alkylene), or one to two carbon atoms (C 1 -C 2 alkylene).
  • an alkylene comprises one carbon atom (C 1 alkylene), or two carbon atoms (C 2 alkylene).
  • an alkylene comprises two to five carbon atoms (e.g., C 2 -C 5 alkylene).
  • the alkylene is optionally substituted with oxo, halogen, -CN, -CF 3 , -OH, -OMe, -NH 2 , or -NO 2 . In some embodiments, the alkylene is optionally substituted with oxo, halogen, -CN, - CF 3 , -OH, or -OMe. In some embodiments, the alkylene is optionally substituted with halogen.
  • Alkoxy refers to a radical of the formula -O-alkyl where alkyl is as defined herein. Unless stated otherwise specifically in the specification, an alkoxy group may be optionally substituted as described above for alkyl.
  • Aryl refers to an aromatic monocyclic hydrocarbon or aromatic multicyclic hydrocarbon ring system by removing a hydrogen atom from a ring carbon atom.
  • Aryl may include cycles with six to eighteen carbon atoms, where at least one of the rings in the ring system is aromatic, i.e., it contains a cyclic, delocalized (4n+2) ⁇ -electron system in accordance with the Hückel theory.
  • the aryl is a monocyclic, bicyclic, tricyclic or tetracyclic ring system, which may include fused ring system (when fused with a cycloalkyl or heterocycloalkyl ring, the aryl is bonded through an aromatic ring atom).
  • the aryl is a 6 to 10-membered aryl.
  • the aryl is a 6-membered aryl.
  • the aryl is a 10-membered aryl.
  • the ring system from which aryl groups are derived include, but are not limited to, groups such as benzene, fluorene, indane, indene, tetralin and naphthalene.
  • the aryl is optionally substituted with halogen, amino, nitrile, nitro, hydroxyl, alkyl, haloalkyl, alkoxy, aryl, aralkyl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like.
  • the aryl is optionally substituted with halogen, -CN, -Me, -Et, -CF 3 , -OH, -OMe, -NH 2 , -NO 2 , or cyclopropyl. In some embodiments, the aryl is optionally substituted with oxo, halogen, -CN, -Me, -Et, -CF 3 , -OH, - OMe, or cyclopropyl. In some embodiments, the aryl is optionally substituted with halogen.
  • Aryloxy refers to a radical bonded through an oxygen atom of the formula -O-aryl, where aryl is as described above.
  • Aralkyl refers to a radical of the formula -R h -aryl where R h is an alkylene chain as defined above, for example, methylene, ethylene, and the like.
  • the alkylene chain part of the aralkyl radical is optionally substituted as described above for an alkylene chain.
  • the aryl part of the aralkyl radical is optionally substituted as described above for an aryl group.
  • “Boronate ester” refers to -B(OR k ) 2 wherein each R k are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly ethylene glycol) ethyl, or an optionally substituted saccharide provided that they are not both hydrogen.
  • each R k is alkyl.
  • two R k may be taken together with the atom to which they are attached to form an optionally substituted heterocycle or a cyclic boronate ester.
  • the cyclic boronate ester is formed from pinanediol, pinacol, 1,2-ethanediol, 1,3-propanediol, 1,2- propanediol, 2,3-butanediol, 1,2-diisopropylethandiol, 5,6-decanediol, 1,2-dicyclohexylethanediol, diethanolamine, 1,2-diphenyl-1,2-ethanediol, 2,6,6-trimethylbicyclo[3.1.1]heptane-2,3-diol, or (1S,2S,3R,5S)-2,6,6-trimethylbicyclo[3.1.1]heptane-2,3-diol.
  • Cycloalkyl refers to a saturated or partially unsaturated, monocyclic or polycyclic hydrocarbon.
  • the cycloalkyl includes fused (when fused with an aryl or a heteroaryl ring, the cycloalkyl is bonded through a non-aromatic ring atom) or bridged ring systems.
  • the cycloalkyl comprises from three to twenty carbon atoms (C 3 -C 20 cycloalkyl), or three to ten carbon atoms (C 3 -C 10 cycloalkyl), or three to eight carbon atoms (C 3 -C 8 cycloalkyl), or three to six carbon atoms (C 3 -C 6 cycloalkyl).
  • the cycloalkyl is a 3- to 6-membered cycloalkyl.
  • the cycloalkyl is a 3- to 8-membered cycloalkyl.
  • Examples of monocyclic cycloalkyls include, e.g., cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl, cycloheptyl, and cyclooctyl.
  • Polycyclic cycloalkyl include, for example, adamantyl, norbornyl (i.e., bicyclo[2.2.1]heptanyl), norbornenyl, decalinyl, 7,7-dimethyl-bicyclo[2.2.1]heptanyl, and the like.
  • the cycloalkyl is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, alkyl, haloalkyl, alkoxy, aryl, aralkyl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like.
  • the cycloalkyl is optionally substituted with oxo, halogen, -CN, -Me, -Et, - CF 3 , -OH, -OMe, -NH 2 , -NO 2 , or cyclopropyl.
  • the cycloalkyl is optionally substituted with oxo, halogen, -CN, -Me, -Et, -CF 3 , -OH, -OMe, or cyclopropyl.
  • the cycloalkyl is optionally substituted with halogen.
  • Cycloalkylalkyl refers to a radical of the formula -R h -cycloalkyl where R h is an alkylene chain as defined above.
  • R h is an alkylene chain as defined above.
  • the alkylene chain and the cycloalkyl radical are optionally substituted as described above.
  • Halo or“halogen” refers to bromo, chloro, fluoro, or iodo. In some embodiments, halogen refers to chloro or fluoro.
  • Heterocycloalkyl refers to a saturated or partially unsaturated ring that comprises two to twenty carbon atoms and at least one heteroatom.
  • the heteroatoms are independently selected from N, O, Si, P, B, and S atoms.
  • the heteroatoms are independently selected from N, O, and S atoms.
  • the heterocycloalkyl may be selected from monocyclic or bicyclic, fused (when fused with an aryl or a heteroaryl ring, the heterocycloalkyl is bonded through a non-aromatic ring atom) or bridged ring systems.
  • the heteroatoms in the heterocycloalkyl are optionally oxidized.
  • the heterocycloalkyl is partially or fully saturated.
  • the heterocycloalkyl is attached to the rest of the molecule through any atom of the heterocycloalkyl, valence permitting, such as any carbon or nitrogen atoms of the heterocycloalkyl.
  • the heterocycloalkyl comprises from two to twenty carbon atoms (C 2 -C 20 heterocycloalkyl), or two to ten carbon atoms (C 2 -C 10 heterocycloalkyl), or two to eight carbon atoms (C 2 -C 8 heterocycloalkyl), or two to six carbon atoms (C 2 -C 6 heterocycloalkyl).
  • the heterocycloalkyl is a 3- to 6-membered heterocycloalkyl. In some embodiments, the heterocycloalkyl is a 3- to 8-membered heterocycloalkyl. In some embodiments, the heterocycloalkyl is a 5- to 6-membered heterocycloalkyl. In some embodiments, the heterocycloalkyl is a 5-membered heterocycloalkyl. In some embodiments, the heterocycloalkyl is a 6-membered heterocycloalkyl.
  • heterocycloalkyl examples include, but are not limited to, azetidinyl, aziridyl, dioxolanyl, thienyl[1,3]dithianyl, decahydroisoquinolyl, imidazolinyl, imidazolidinyl, isothiazolidinyl, isoxazolidinyl, morpholinyl, octahydroindolyl, octahydroisoindolyl, 2-oxopiperazinyl, 2-oxopiperidinyl, 2-oxopyrrolidinyl, oxazolidinyl, piperidinyl, piperazinyl, 4-piperidonyl, pyrrolidinyl, pyrazolidinyl, quinuclidinyl, thiazolidinyl, tetrahydrofuryl, trithianyl, tetrahydropyranyl, thiomorpholinyl, thi
  • the heterocycloalkyl is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, alkyl, haloalkyl, alkoxy, aryl, aralkyl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like.
  • the heterocycloalkyl is optionally substituted with oxo, halogen, -CN, -Me, -Et, -CF 3 , -OH, -OMe, -NH 2 , -NO 2 , or cyclopropyl.
  • the heterocycloalkyl is optionally substituted with oxo, halogen, -CN, -Me, -Et, - CF 3 , -OH, -OMe, or cyclopropyl. In some embodiments, the heterocycloalkyl is optionally substituted with halogen.
  • Heterocycloalkylalkyl refers to a radical of the formula -R h -heterocycloalkyl where R h is an alkylene chain as defined above. If the heterocycloalkyl is a nitrogen-containing heterocycloalkyl, the heterocycloalkyl is optionally attached to the alkyl radical at the nitrogen atom. The alkylene chain of the heterocycloalkylalkyl radical is optionally substituted as defined above for an alkylene chain. The heterocycloalkyl part of the heterocycloalkylalkyl radical is optionally substituted as defined above for a heterocycloalkyl group.
  • Heteroaryl refers to a 5- to 14-membered ring system comprising hydrogen atoms, one to thirteen carbon atoms, one to six heteroatoms selected from the group consisting of nitrogen, oxygen, phosphorous and sulfur, and at least one aromatic ring.
  • the heteroaryl is a 5- or 6-membered heteroaryl.
  • the heteroaryl is a 5-membered heteroaryl.
  • the heteroaryl is a 6-membered heteroaryl.
  • the heteroaryl is a monocyclic, bicyclic, tricyclic or tetracyclic ring system, which may include fused ring systems (when fused with a cycloalkyl or heterocycloalkyl ring, the heteroaryl is bonded through an aromatic ring atom); and the nitrogen, carbon or sulfur atoms in the heteroaryl may be optionally oxidized; the nitrogen atom may be optionally quaternized.
  • the heteroaryl is a 5- to 10- membered heteroaryl. In some embodiments, the heteroaryl is a 10-membered heteroaryl.
  • Examples include, but are not limited to, azepinyl, acridinyl, benzimidazolyl, benzothiazolyl, benzindolyl, benzodioxolyl, benzofuranyl, benzooxazolyl, benzothiazolyl, benzothiadiazolyl,
  • the heteroaryl is optionally substituted with halogen, amino, nitrile, nitro, hydroxyl, alkyl, haloalkyl, alkoxy, aryl, aralkyl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like.
  • the heteroaryl is optionally substituted with halogen, -CN, -Me, -Et, -CF 3 , -OH, -OMe, -NH 2 , -NO 2 , or cyclopropyl.
  • the heteroaryl is optionally substituted with halogen, -CN, -Me, - Et, -CF 3 , -OH, -OMe, or cyclopropyl. In some embodiments, the heteroaryl is optionally substituted with halogen.
  • “optional” or“optionally” means that the subsequently described event or circumstance may or may not occur, and that the description includes instances where said event or circumstance occurs and instances in which it does not.
  • “optionally substituted alkyl” means either“alkyl” or“substituted alkyl” as defined above.
  • an optionally substituted group may be un-substituted (e.g., -CH 2 CH 3 ), fully substituted (e.g., -CF 2 CF 3 ), mono-substituted (e.g., - CH 2 CH 2 F) or substituted at a level anywhere in-between fully substituted and mono-substituted (e.g., -CH 2 CHF 2 , -CH 2 CF 3 , -CF 2 CH 3 , -CFHCHF 2 , etc).
  • any substituents described should generally be understood as having a maximum molecular weight of about 1,000 daltons, and more typically, up to about 500 daltons.
  • an“effective amount” or“therapeutically effective amount” refers to an amount of a compound administered to a mammalian subject, either as a single dose or as part of a series of doses, which is effective to produce a desired therapeutic effect.
  • Treatment of an individual (e.g. a mammal, such as a human) or a cell is any type of intervention used in an attempt to alter the natural course of the individual or cell.
  • treatment includes administration of a pharmaceutical composition, subsequent to the initiation of a pathologic event or contact with an etiologic agent and includes stabilization of the condition (e.g., condition does not worsen) or alleviation of the condition.
  • treatment also includes prophylactic treatment (e.g., administration of a composition described herein when an individual is suspected to be suffering from a bacterial infection).
  • Described herein are compounds that modulate the activity of beta-lactamase.
  • the compounds described herein inhibit beta-lactamase.
  • the compounds described herein inhibit penicillin binding protein.
  • the compounds described herein are useful in the treatment of bacterial infections.
  • the bacterial infection is an upper or lower respiratory tract infection, a urinary tract infection, an intra-abdominal infection, or a skin infection.
  • the bacterial infection is uncomplicated or complicated urinary tract infections, uncomplicated or complicated gonorrhea, upper or lower respiratory tract infections, skin or skin structure infections, intra-abdominal infections, central nervous system infections, blood stream infections, or systemic infections.
  • L 1 is -(CR 1 R 2 ) n -;
  • L 2 is -(CR 1 R 2 ) m -;
  • a 1 is hydrogen, , or Y;
  • Ring A is cycloalkyl, heterocycloalkyl, aryl, or heteroaryl;
  • R 8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • each R 20 and R 21 is independently hydrogen, halogen, or optionally substituted alkyl;
  • R 22 and R 23 are independently hydrogen or optionally substituted alkyl
  • R 22 and R 23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl
  • R 24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
  • heterocycloalkyl optionally substituted aryl, or optionally substituted heteroaryl
  • R 25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • R 30 and R 31 , or R 50 and R 51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
  • R 32 and R 33 , or R 52 and R 53 , or R 82 and R 83 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
  • R 34 , R 54 , and R 84 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 35 and R 55 are independently hydrogen, optionally substituted alkyl, optionally substituted
  • cycloalkyl optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 36 and R 56 are independently hydrogen, -OH, -OR 24 , -CN, -NO 2 , -NR 22 R 23 , or optionally
  • each R 60 is independently -CH 2 -, -CH(CH 3 )-, -C(CH 3 ) 2 -, or optionally substituted 1,1’- cyclopropylene;
  • each R 61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
  • R 74 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
  • R a , R b , and R c are independently hydrogen, halogen, cyano, optionally substituted alkyl,
  • optionally substituted alkyl optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
  • each R e is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
  • R X is optionally substituted alkyl or optionally substituted cycloalkyl
  • X 1 and X 2 are independently -OH, -OR X , or F; or X 1 and X 2 are taken together with the boron atom to which they are attached to form a cyclic boronate ester;
  • T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl
  • Q is a pharmaceutically acceptable counterion
  • n 0-3;
  • n 0-3;
  • p 0-3;
  • each q is independently 2-6;
  • each v is independently 1-5;
  • each w is independently 2-5.
  • R 8 is hydrogen or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R 8 is hydrogen.
  • R 74 is optionally substituted heteroaryl.
  • the heteroaryl is thiazole, pyridine, or pyrimidine.
  • R 74 is optionally substituted heterocycloalkyl.
  • the heterocycloalkyl is piperazine, morpholine, or imidazolidine.
  • R 74 is optionally substituted piperazine.
  • R 74 is -NR 82 R 83 .
  • R 82 and R 83 are independently hydrogen, optionally substituted alkyl, or optionally substituted heteroaryl. In some embodiments of a compound of Formula (Ia) or (Ib), R 82 and R 83 are independently hydrogen or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R 82 and R 83 are both optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R 82 is hydrogen and and R 83 optionally substituted alkyl or optionally substituted heteroaryl.
  • R 82 and R 83 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl.
  • the heterocycloalkyl is piperazine, morpholine, or imidazolidine.
  • R 74 is optionally substituted piperazine.
  • R 74 is
  • R 90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
  • each R 91 is independently hydrogen, halogen, -OH, -CN, NH 2 , NO 2 , optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • u1 is 1-3;
  • u2 is 1-3.
  • R 74 is
  • each R 91 is independently hydrogen, halogen, -OH, -CN, NH 2 , NO 2 , optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; u1 is 1-3; and
  • u2 is 1-3.
  • u1 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u2 is 1.
  • u2 is 2. In some embodiments of a compound of Formula (Ia) or (Ib), u2 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 1 and u2 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2 and u2 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2 and u2 is 2. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 1 and u2 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2 and u2 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 3 and u2 is 3.
  • R 90 is optionally substituted alkyl.
  • R 90 is -H, -OH, , ,
  • R 90 is ethyl
  • each R 91 is independently hydrogen, halogen, or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), each R 91 is hydrogen.
  • R 74 is selected from:
  • R 90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
  • each R 91 is independently hydrogen, halogen, -OH, -CN, NH 2 , NO 2 , optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; and t is 1-4.
  • R 74 is:
  • t is 0. In some embodiments of a compound of Formula (Ia) or (Ib), t is 1. In some embodiments of a compound of Formula (Ia) or (Ib), t is 2. In some embodiments of a compound of Formula (Ia) or (Ib), t is 3. In some embodiments of a compound of Formula (Ia) or (Ib), t is 4.
  • R 90 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, or optionally substituted aralkyl.
  • R 90 is optionally substituted alkyl.
  • R 90 is alkyl optionally substituted with halogen, cycloalkyl, -NH 2 , - OH, or -OMe. In some embodiments of a compound of Formula (Ia) or (Ib), R 90 is methyl, ethyl, propyl, or butyl. In some embodiments of a compound of Formula (Ia) or (Ib), R 90 is ethyl. [0060] In some embodiments of a compound of Formula (Ia) or (Ib), R 90 is -H, -OH, , ,
  • each R 91 is independently hydrogen, halogen, or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), each R 91 is independently hydrogen or halogen. In some embodiments of a compound of Formula (Ia) or (Ib), each R 91 is hydrogen.
  • R 74 is:
  • R 74 is:
  • R 74 is:
  • R 74 is
  • G is -NR 8 -, -C(R 10 ) 2 -, or -C(R 10 ) 2 NR 8 -;
  • L 1 is -(CR 1 R 2 ) n -;
  • L 2 is -(CR 1 R 2 ) m -;
  • a 1 is hydrogen
  • Ring A is cycloalkyl, heterocycloalkyl, aryl, or heteroaryl;
  • R 1 and R 2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
  • R 8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • substituted heterocycloalkyl optionally substituted aryl, or optionally substituted heteroaryl;
  • R 8 and R 9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl
  • each R 10 is independently hydrogen, halogen, or optionally substituted alkyl
  • each R 20 and R 21 is independently hydrogen, halogen, or optionally substituted alkyl
  • R 22 and R 23 are independently hydrogen or optionally substituted alkyl
  • R 22 and R 23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl
  • R 24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
  • heterocycloalkyl optionally substituted aryl, or optionally substituted heteroaryl
  • R 25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • R 30 and R 31 , or R 50 and R 51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
  • R 32 , R 33 , R 52 , and R 53 are independently hydrogen, optionally substituted alkyl, optionally
  • R 33 or R 52 and R 53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl
  • R 34 , and R 54 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 35 and R 55 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 36 and R 56 are independently hydrogen, -OH, -OR 24 , -CN, -NO 2 , -NR 22 R 23 , or optionally
  • each R 60 is independently -CH 2 -, -CH(CH 3 )-, -C(CH 3 ) 2 -, or optionally substituted 1,1’- cyclopropylene;
  • each R 61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
  • R 90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
  • each R 91 is independently hydrogen, halogen, -OH, -CN, NH 2 , NO 2 , optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R a , R b , and R c are independently hydrogen, halogen, cyano, optionally substituted alkyl,
  • each R e is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
  • R X is optionally substituted alkyl or optionally substituted cycloalkyl
  • X 1 and X 2 are independently -OH, -OR X , or F; or
  • X 1 and X 2 are taken together with the boron atom to which there are attached to form a cyclic boronate ester;
  • T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl
  • Q is a pharmaceutically acceptable counterion
  • n 0-3;
  • n 0-3;
  • p 0-3;
  • each q is independently 2-6;
  • u1 is 1-3
  • u2 is 1-3;
  • G is -NR 8 -, -C(R 10 ) 2 -, or -C(R 10 ) 2 NR 8 -;
  • L 1 is -(CR 1 R 2 ) n -;
  • L 2 is -(CR 1 R 2 ) m -;
  • a 1 is hydrogen
  • Ring A is cycloalkyl, heterocycloalkyl, aryl, or heteroaryl;
  • R 1 and R 2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
  • R 8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • substituted heterocycloalkyl optionally substituted aryl, or optionally substituted heteroaryl;
  • R 8 and R 9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl
  • each R 10 is independently hydrogen, halogen, or optionally substituted alkyl
  • each R 20 and R 21 is independently hydrogen, halogen, or optionally substituted alkyl
  • R 22 and R 23 are independently hydrogen or optionally substituted alkyl; or R 22 and R 23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
  • R 24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
  • heterocycloalkyl optionally substituted aryl, or optionally substituted heteroaryl
  • R 25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
  • R 30 and R 31 , or R 50 and R 51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
  • R 32 , R 33 , R 52 , and R 53 are independently hydrogen, optionally substituted alkyl, optionally
  • R 33 or R 52 and R 53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl
  • R 34 , and R 54 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 35 and R 55 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R 36 and R 56 are independently hydrogen, -OH, -OR 24 , -CN, -NO 2 , -NR 22 R 23 , or optionally
  • each R 60 is independently -CH 2 -, -CH(CH 3 )-, -C(CH 3 ) 2 -, or optionally substituted 1,1’- cyclopropylene;
  • each R 61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
  • each R 91 is independently hydrogen, halogen, -OH, -CN, NH 2 , NO 2 , optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
  • R a , R b , and R c are independently hydrogen, halogen, cyano, optionally substituted alkyl,
  • optionally substituted alkyl optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
  • each R e is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
  • R X is optionally substituted alkyl or optionally substituted cycloalkyl
  • X 1 and X 2 are independently -OH, -OR X , or F; or
  • X 1 and X 2 are taken together with the boron atom to which there are attached to form a cyclic boronate ester;
  • T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl
  • Q is a pharmaceutically acceptable counterion
  • n 0-3;
  • n 0-3;
  • p 0-3;
  • each q is independently 2-6;
  • u1 is 1-3
  • u2 is 1-3;
  • each v is independently 1-5;
  • each w is independently 2-5.
  • G is -NR 8 - or -CH 2 NR 8 -. In some embodiments of a compound of Formula (IIa) or (IIb), G is -CH 2 -. In some embodiments of a compound of Formula (IIa) or (IIb), G is -NR 8 -. In some embodiments of a compound of Formula (IIa) or (IIb), G is -CH 2 NR 8 -. In some embodiments of a compound of Formula (IIa) or (IIb), R 9 is hydrogen or optionally substituted alkyl.
  • R 9 is optionally substituted alkyl. In some embodiments of a compound of Formula (IIa) or (IIb), R 9 is methyl. In some embodiments of a compound of Formula (IIa) or (IIb), R 9 is hydrogen. In some embodiments of a compound of Formula (IIa) or (IIb), and R 9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl.
  • R 9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl selected from pyrrolidine or azetidine.
  • G is -NR 8 - and the heterocycloalkyl formed when R 8 and R 9 are taken together with the atoms to which they are attached is pyrrolidine.
  • G is -CH 2 NR 8 - and the heterocycloalkyl formed when R 8 and R 9 are taken together with the atoms to which they are attached is azetidine.
  • the compound of Formula (IIa) or (IIb) is of Formula (IIa-1) or (IIb- 1), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
  • u1 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 3. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 1.
  • u1 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 3. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u2 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u2 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u2 is 3.
  • u1 is 1 and u2 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2 and u2 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2 and u2 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 1 and u2 is 3.
  • R 90 is optionally substituted alkyl.
  • R 90 is -H, -OH,
  • R 90 is -H, -OH,
  • R 90 is ethyl
  • each R 91 is independently hydrogen, halogen, or optionally substituted alkyl. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), each R 91 is hydrogen.
  • a 1 is a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1).
  • Ring A is cyclopropane, cyclobutane, cyclopentane, cyclohexane, cycloheptane, cyclooctane, cyclopentene, cyclohexene, cycloheptene, and cyclooctene, wherein the olefin functionality of the cyclopentene, cyclohexene, cycloheptene, and cyclooctene is not directly attached to an oxygen, sulfur, or nitrogen substituent.
  • Ring A is cyclopropane, cyclobutane, cyclopentane, or cyclohexane.
  • Ring A is azetidine, aziridine, oxirane, oxetane, thietane, pyrrolidine, oxazolidine, isoxazolidine, thiazolidine, isothiazolidine, imidazolidine, pyrazolidine, 2,5-dihydro-1H-pyrrole, 3,4-dihydro-2H- pyrrole, 4,5-dihydrooxazole, 4,5-dihydroisoxazole, 4,5-dihydrothiazole, 4,5-dihydroisothiazole, 4,5- dihydro-1H-pyrazole, 4,5-dihydro-1H-imidazole, 2,5-dihydro-1H-pyrrole, piperidine, morpholine, thiomorph
  • Ring A is pyrrolidine, piperidine, morpholine, or piperazine. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5- membered heterocycloalkyl bearing at least one nitrogen atom. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heterocycloalkyl bearing at least one oxygen atom.
  • Ring A is a 5-membered heterocycloalkyl bearing at least one oxygen atom and one nitrogen atom.
  • Ring A is benzene, naphthalene, pyridine, pyrimidine, pyrazine, pyridazine, triazine, thiophene, furan, pyrrole, pyrazole, triazole, tetrazole, imidazole, thiazole, isothiazole, oxazole, isoxazole, indole, thiadiazole, oxadiazole, indazole, azaindole, azaindazole, indolizine, imidazopyridine, pyrazolo- pyridine, thiazolo-pyridine, pyrrolo-pyrimidine, thieno-pyrazole, benzimidazole, benzothiazole, benzoxazole, benzofuran
  • Ring A is benzene, pyridine, thiazole, triazole, tetrazole, oxadiazole, or thiadiazole.
  • Ring A is benzene, pyridine, thiazole, triazole, tetrazole, imidazole, oxadiazole, or thiadiazole. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is thiazole. In some embodiments of a compound of Formula (Ia), (IIa), (IIa- 1), (Ib), (IIb), or (IIb-1), Ring A is not thiazole.
  • Ring A is benzene. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is benzene and p is 1-3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is benzene and p is 1-3. In some
  • Ring A is 6- membered aryl or 6-membered heteroaryl .
  • Ring A is 6-membered aryl or 6-membered heteroaryl and p is 1-3.
  • Ring A is 6- membered aryl or 6-membered heteroaryl and p is 1-4.
  • Ring A is thiophene, furan, pyrrole, pyrazole, triazole, tetrazole, imidazole, isothiazole, oxazole, isoxazole, thiadiazole, and oxadiazole.
  • Ring A is naphthalene, pyridine, pyrimidine, pyrazine, pyridazine, triazine, indole, indazole, azaindole, azaindazole, indolizine, imidazopyridine, pyrazolo-pyridine, thiazolo-pyridine, pyrrolo-pyrimidine, thieno-pyrazole, benzimidazole, benzothiazole, benzoxazole, benzofuran, benzisoxazole,
  • Ring A is pyridine, pyrimidine, pyrazine, or pyridazine.
  • Ring A is pyridine. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is benzene or pyridine.
  • Ring A is a 5-membered heteroaryl bearing at least two nitrogen atoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing at least three nitrogen atoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing four nitrogen atoms.
  • Ring A is a 5- membered heteroaryl bearing only nitrogen atoms as heteroatoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing at least one oxygen atom. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing at least one sulfur atom.
  • each Y is independently -NR 32 R 33 . In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently -(CR 30 R 31 ) v NR 32 R 33 . In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently -NR 32 (CR 30 R 31 ) w NR 32 R 33 .
  • each Y is independently -OH.
  • each Y is independently halogen, -NR 32 R 33 , -OH, -OR 34 , or - NR 32 (CR 30 R 31 ) w NR 32 R 33 .
  • each Y is independently -OH or -OR 34 .
  • each Y is independently halogen, optionally substituted alkyl, -OH, -OR 34 , -O(CR 30 R 31 ) w OH, - O(CR 30 R 31 ) w OR 34 , -O(CR 30 R 31 ) w NR 32 R 33 , -NR 32 R 33 , -NR 32 (CR 30 R 31 ) w NR 32 R 33 , -NR 32 (CR 30 R 31 ) w OH, - (CR 30 R 31 ) 0
  • each Y is independently halogen, optionally substituted alkyl, -OH, -OR 34 , -O(CR 30 R 31 ) w OH, - O(CR 30 R 31 ) w OR 34 , -O(CR 30 R 31 ) 2
  • each Y is independently halogen, -OH, or -OR 34 .
  • two Ys are taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl.
  • two Ys are taken together with the atoms to which they are attached to form a heterocycloalkyl optionally substituted with alkyl or halogen.
  • each Y is defined by the inclusion of non-hydrogen atoms.
  • each Y comprises at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 12, 14, 16, 18, 20, 24, 28, 32, 36, 40, 50, or 60 non-hydrogen atoms.
  • each Y comprises fewer than 50, 40, 36, 32, 28, 24, 20, 18, 16, 14, 12, 10, 9, 8, 7, 6, 5, 4, 3 or 2 non-hydrogen atoms.
  • each Y is independently a group comprising 1-50 non-hydrogen atoms.
  • non-hydrogen atoms are atoms generally found in organic molecules.
  • non-hydrogen atoms are atoms selected from the group consisting of halogen, C, N, O, S, and P.
  • each Y is independently a group comprising 1-50 non-hydrogen atoms selected from the group consisting of halogen, C, N, O, S, and P.
  • each Y is independently a group comprising 1-50 non- hydrogen atoms selected from the group consisting of halogen, C, N, and O.
  • each Y is defined by its molecular formula.
  • each Y has the formula C a H b N c O d ; wherein each a is independently 0-30; each b is independently 1-69; each c is independently 1-8; and each d is independently 0-10.
  • each Y has the formula C a H b N c O d ; wherein each a is independently 0-10; each b is independently 1-25; each c is independently 1-4; and each d is independently 0-3.
  • each c is 2.
  • each c is at least 2.
  • each Y is defined by its molecular weight.
  • each Y has a molecular weight of less than 500, 450, 400, 350, 300, 250, 200, 190, 180, 170, 160, 150, 140, 130, 120, 110, 100, 90, 80, 75, 70, or 50 daltons.
  • each Y has a molecular weight of less than 200 daltons. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y has a molecular weight of less than 150 daltons. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y has a molecular weight between 30 and 280 daltons.
  • p is 0-2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 1-3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 1- 4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 2 or 3.
  • p is not 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 3.
  • a 1 is hydrogen.
  • a 1 is Y.
  • a 1 is Y; and Y is -OH.
  • a 1 is Y; and Y is -NR 32 R 33 .
  • a 1 is Y; and Y is -OR 34 .
  • Y is defined as above and R 30 and R 31 are independently hydrogen or optionally substituted alkyl; or two R 30 on adjacent carbon form an alkenyl.
  • Y is defined as above and R 32 and R 33 are independently hydrogen or optionally substituted alkyl; or R 32 and R 33 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl.
  • Y is defined as above and R 34 is optionally substituted alkyl.
  • R 34 is substituted alkyl.
  • Y is defined as above and R 35 is hydrogen or optionally substituted alkyl.
  • R 35 is hydrogen or optionally substituted alkyl.
  • Y is defined as above and R 36 is hydrogen or optionally substituted alkyl.
  • Y is defined as above, R 30 and R 31 are independently hydrogen or optionally substituted alkyl; or two R 30 on adjacent carbon form an alkenyl; R 32 and R 33 are independently hydrogen or optionally substituted alkyl; or R 32 and R 33 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl; R 34 is optionally substituted alkyl; R 35 is hydrogen or optionally substituted alkyl; R 36 is hydrogen or optionally substituted alkyl; v is 1 or 2; and w is 2 or 3.
  • Y is defined as above and v is 1 or 2.
  • v is 1.
  • v is 2.
  • v is 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), v is 4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), v is 5.
  • Y is defined as above and w is 2 or 3.
  • w is 2.
  • w is 3.
  • w is 4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), w is 5.
  • R a , R b , and R c are hydrogen.
  • R a , R b , or R c is alkyl optionally substituted with heterocycloalkyl (optionally substituted with optionally substituted alkyl).
  • At least one of R a , R b , or R c is -(CR 50 R 51 ) v heterocycloalkyl optionally substituted with optionally substituted alkyl.
  • R a , R b , or R c are defined as above, R 50 and R 51 are independently hydrogen or optionally substituted alkyl; or two R 50 on adjacent carbon form an alkenyl; R 52 and R 53 are independently hydrogen or optionally substituted alkyl; or R 52 and R 53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl; R 54 is optionally substituted alkyl; R 55 is hydrogen or optionally substituted alkyl; R 56 is hydrogen or optionally substituted alkyl; each v is independently 1 or 2; and each w is independently 2 or 3.
  • R a is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), R b is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), R c is hydrogen.
  • R a is not hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), R b is not hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), R c is not hydrogen.
  • R a and R b are hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), R a and R c are hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), R b and R c are hydrogen.
  • X 1 is -OH and X 2 is ­OH when present.
  • X 1 and X 2 are taken together with the boron atom to which they are attached to form a cyclic boronate ester.
  • R d is hydrogen or alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), R d is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), R d is alkyl.
  • each R e is independently hydrogen or alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each R e is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each R e is independently alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), one R e is hydrogen and the other R e is alkyl
  • n is 1-3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0-2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 1 or 2.
  • n is 0 or 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 2 or 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 1.
  • n is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 3.
  • m is 0-4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0-3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 1- 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0-2.
  • m is 1 or 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0 or 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 2 or 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0.
  • m is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0 or 1 and m is 0 or 1.
  • n is 0 and m is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0 and m is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 1 and m is 0.
  • n is 2 and m is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0 and m is 2.
  • each R 1 and R 2 is independently hydrogen, -OH, fluoro, chloro, bromo, or optionally substituted alkyl.
  • each R 1 and R 2 is independently hydrogen, fluoro, chloro, bromo, or optionally substituted alkyl.
  • each R 1 and R 2 is hydrogen.
  • Z is hydrogen.
  • Z is not hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Z is R 61 ; and R 61 is optionally substituted alkyl.
  • R 60 is - CH 2 - or -CH(CH 3 )-; and
  • R 61 is optionally substituted alkyl, optionally substituted cycloalkyl, or optionally substituted heterocycloalkyl.
  • R 60 is -CH 2 - or -CH(CH 3 )-; and
  • R 61 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl.
  • the compound is of formula: .
  • the compound is of formula: .
  • Described herein are compounds of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb- 1) that inhibit the activity of penicillin-binding proteins, and processes for their preparation. Also described herein are pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer of compounds of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1).
  • Compounds of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1) may be synthesized using standard synthetic reactions known to those of skill in the art or using methods known in the art. The reactions can be employed in a linear sequence to provide the compounds or they may be used to synthesize fragments which are subsequently joined by the methods known in the art.
  • the starting material used for the synthesis of the compounds described herein may be synthesized or can be obtained from commercial sources.
  • the compounds described herein, and other related compounds having different substituents can be synthesized using techniques and materials known to those of skill in the art, such as described, for example, in March, ADVANCED ORGANIC CHEMISTRY 4 th Ed., (Wiley 1992); Carey and Sundberg, ADVANCED ORGANIC CHEMISTRY 4 th Ed., Vols.
  • the products of the reactions may be isolated and purified, if desired, using conventional techniques, including, but not limited to, filtration, distillation, crystallization, chromatography, and the like. Such materials may be characterized using conventional means, including physical constants and spectral data.
  • the compounds described herein may convert to, or exist in equilibrium with, alternate forms, particularly in milieu that contain water (aqueous solution, plasma, etc.). Accordingly, the compounds described herein may exist in an equilibrium between the“closed” cyclic form shown in Formula (Ia), (IIa), or (IIa-1) and the“open” acyclic form shown in Formula (Ib), (IIb), or (IIb-1). In addition the compounds described herein may associate into intramolecular dimers, trimers, and related combinations.
  • the compounds described herein exist as geometric isomers.
  • the compounds described herein possess one or more double bonds.
  • the compounds presented herein include all cis, trans, syn, anti,
  • E
  • Z
  • the compounds described herein possess one or more chiral centers and each center exists in the R configuration, or S confirguration.
  • the compounds described herein include all diastereomeric, enantiomeric, and epimeric forms as well as the corresponding mixtures thereof.
  • mixtures of enantiomers and/or diastereoisomers, resulting from a single preparative step, combination, or interconversion are useful for the applications described herein.
  • the compounds described herein are prepared as their individual stereoisomers by reacting a racemic mixture of the compound with an optically active resolving agent to form a pair of diastereoisomeric compounds, separating the diastereomers and recovering the optically pure enantiomers.
  • dissociable complexes are preferred (e.g., crystalline diastereomeric salts).
  • the diastereomers have distinct physical properties (e.g., melting points, boiling points, solubilities, reactivity, etc.) and are separated by taking advantage of these dissimilarities.
  • the diastereomers are separated by chiral chromatography, or preferably, by separation/resolution techniques based upon differences in solubility.
  • the optically pure enantiomer is then recovered, along with the resolving agent, by any practical means that would not result in racemization.
  • Compounds described herein may be prepared as a single isomer or a mixture of isomers.
  • compounds described herein exist as tautomers.
  • the compounds described herein include all possible tautomers within the formulas described herein.
  • A“tautomer” refers to a proton shift from one atom of a molecule to another atom of the same molecule.
  • the compounds presented herein may exist as tautomers. Tautomers are compounds that are
  • the compounds described herein exist in their isotopically-labeled forms.
  • the methods disclosed herein include methods of treating diseases by administering such isotopically-labeled compounds.
  • the methods disclosed herein include methods of treating diseases by administering such isotopically-labeled compounds as pharmaceutical compositions.
  • the compounds disclosed herein include isotopically-labeled compounds, which are identical to those recited herein, but for the fact that one or more atoms are replaced by an atom having an atomic mass or mass number different from the atomic mass or mass number usually found in nature.
  • isotopes examples include isotopes of hydrogen, carbon, nitrogen, oxygen, phosphorous, sulfur, fluorine, and chloride, such as 2 H, 3 H, 13 C, 14 C, l5 N, 18 O, 17 O, 31 P, 32 P, 35 S, 18 F, and 36 Cl, respectively.
  • Compounds described hereinwhich contain the aforementioned isotopes and/or other isotopes of other atoms are within the scope of this invention.
  • Certain isotopically-labeled compounds for example those into which radioactive isotopes such as 3 H and 14 C are incorporated, are useful in drug and/or substrate tissue distribution assays. Tritiated, i.
  • isotopes are particularly preferred for their ease of preparation and detectability. Further, substitution with heavy isotopes such as deuterium, i.e., 2 H, produces certain therapeutic advantages resulting from greater metabolic stability, for example increased in vivo half-life or reduced dosage requirements.
  • the isotopically labeled compounds, pharmaceutically acceptable salt, ester, prodrug, solvate, hydrate, or derivative thereof is prepared by any suitable method.
  • the compounds described herein are labeled by other means, including, but not limited to, the use of chromophores or fluorescent moieties, bioluminescent labels, or chemiluminescent labels.
  • Pharmaceutically acceptable salts include, but not limited to, the use of chromophores or fluorescent moieties, bioluminescent labels, or chemiluminescent labels.
  • the compounds described herein exist as their pharmaceutically acceptable salts.
  • the methods disclosed herein include methods of treating diseases by administering such pharmaceutically acceptable salts.
  • the methods disclosed herein include methods of treating diseases by administering such pharmaceutically acceptable salts as pharmaceutical compositions.
  • the compounds described herein possess acidic or basic groups and therefore react with any of a number of inorganic or organic bases, and inorganic and organic acids, to form a pharmaceutically acceptable salt.
  • these salts are prepared in situ during the final isolation and purification of the compounds described herein, or by separately reacting a purified compound in its free form with a suitable acid or base, and isolating the salt thus formed.
  • Examples of pharmaceutically acceptable salts include those salts prepared by reaction of the compounds described herein with a mineral, organic acid or inorganic base, such salts including, acetate, acrylate, adipate, alginate, aspartate, benzoate, benzenesulfonate, bisulfate, bisulfite, bromide, butyrate, butyn-1,4-dioate, camphorate, camphorsulfonate, caproate, caprylate, chlorobenzoate, chloride, citrate, cyclopentanepropionate, decanoate, digluconate, dihydrogenphosphate,
  • the compounds described herein can be prepared as pharmaceutically acceptable salts formed by reacting the free base form of the compound with a pharmaceutically acceptable inorganic or organic acid, including, but not limited to, inorganic acids such as hydrochloric acid, hydrobromic acid, sulfuric acid, nitric acid, phosphoric acid metaphosphoric acid, and the like; and organic acids such as acetic acid, propionic acid, hexanoic acid, cyclopentanepropionic acid, glycolic acid, pyruvic acid, lactic acid, malonic acid, succinic acid, malic acid, maleic acid, fumaric acid, p- toluenesulfonic acid, tartaric acid, trifluoroacetic acid, citric acid, benzoic acid, 3-(4- hydroxybenzoyl)benzoic acid, cinnamic acid, mandelic acid, arylsulfonic acid, methanesulfonic acid, ethanesulfonic acid, 1,
  • those compounds described herein which comprise a free acid group react with a suitable base, such as the hydroxide, carbonate, bicarbonate, sulfate, of a
  • salts include the alkali or alkaline earth salts, like lithium, sodium, potassium, calcium, and magnesium, and aluminum salts and the like.
  • bases include sodium hydroxide, potassium hydroxide, choline hydroxide, sodium carbonate, N + (C 1-4 alkyl) 4 , and the like.
  • Representative organic amines useful for the formation of base addition salts include ethylamine, diethylamine, ethylenediamine, ethanolamine, diethanolamine, piperazine, and the like. It should be understood that the compounds described herein also include the quaternization of any basic nitrogen-containing groups they contain. In some embodiments, water or oil-soluble or dispersible products are obtained by such quaternization.
  • the compounds described herein exist as solvates.
  • the invention provides for methods of treating diseases by administering such solvates.
  • the invention further provides for methods of treating diseases by administering such solvates as pharmaceutical compositions.
  • Solvates contain either stoichiometric or non-stoichiometric amounts of a solvent, and, in some embodiments, are formed during the process of crystallization with pharmaceutically acceptable solvents such as water, ethanol, and the like. Hydrates are formed when the solvent is water, or alcoholates are formed when the solvent is alcohol. Solvates of the compounds described herein can be conveniently prepared or formed during the processes described herein. By way of example only, hydrates of the compounds described herein can be conveniently prepared by recrystallization from an aqueous/organic solvent mixture, using organic solvents including, but not limited to, dioxane, tetrahydrofuran, or methanol. In addition, the compounds provided herein can exist in unsolvated as well as solvated forms. In general, the solvated forms are considered equivalent to the unsolvated forms for the purposes of the compounds and methods provided herein. Pharmaceutical Compositions/Formulations
  • compositions comprising a compound described herein, or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N- oxide, dimer, or trimer thereof, and a pharmaceutically acceptable excipient.
  • the pharmaceutical composition further comprises a beta-lactam antibiotic.
  • the beta-lactam antibiotic is a penicillin, cephalosporin, carbapenem, monobactam, bridged monobactam, or a combination thereof.
  • the compounds described herein are formulated into pharmaceutical compositions.
  • Pharmaceutical compositions are formulated in a conventional manner using one or more pharmaceutically acceptable inactive ingredients that facilitate processing of the active compounds into preparations that can be used pharmaceutically. Proper formulation is dependent upon the route of administration chosen.
  • a summary of pharmaceutical compositions described herein can be found, for example, in Remington: The Science and Practice of Pharmacy, Nineteenth Ed (Easton, Pa.: Mack Publishing Company, 1995); Hoover, John E., Remington’s Pharmaceutical Sciences, Mack Publishing Co., Easton, Pennsylvania 1975; Liberman, H.A.
  • a pharmaceutical composition refers to a mixture of a compound described herein with other chemical components (i.e. pharmaceutically acceptable inactive ingredients), such as carriers, excipients, binders, filling agents, suspending agents, flavoring agents, sweetening agents, disintegrating agents, dispersing agents, surfactants, lubricants, colorants, diluents, solubilizers, moistening agents, plasticizers, stabilizers, penetration enhancers, wetting agents, anti-foaming agents, antioxidants, preservatives, or one or more combination thereof.
  • the pharmaceutical composition facilitates administration of the compound to an organism.
  • therapeutically effective amounts of compounds described herein are administered in a pharmaceutical composition to a mammal having a disease, disorder, or condition to be treated.
  • the mammal is a human.
  • a therapeutically effective amount can vary widely depending on the severity of the disease, the age and relative health of the subject, the potency of the compound used and other factors.
  • the compounds can be used singly or in combination with one or more therapeutic agents as components of mixtures.
  • compositions described herein are administered to a subject by appropriate administration routes, including, but not limited to, oral, parenteral (e.g., intravenous, subcutaneous, intramuscular), intranasal, buccal, topical, rectal, or transdermal administration routes.
  • parenteral e.g., intravenous, subcutaneous, intramuscular
  • intranasal e.g., buccal
  • topical e.g., topical, rectal, or transdermal administration routes.
  • the pharmaceutical formulations described herein include, but are not limited to, aqueous liquid dispersions, liquids, gels, syrups, elixirs, slurries, suspensions, self-emulsifying dispersions, solid solutions, liposomal dispersions, aerosols, solid oral dosage forms, powders, immediate release formulations, controlled release formulations, fast melt formulations, tablets, capsules, pills, powders, dragees, effervescent formulations, lyophilized formulations, delayed release formulations, extended release formulations, pulsatile release formulations, multiparticulate formulations, and mixed immediate and controlled release formulations.
  • Combination Treatment include, but are not limited to, aqueous liquid dispersions, liquids, gels, syrups, elixirs, slurries, suspensions, self-emulsifying dispersions, solid solutions, liposomal dispersions, aerosols, solid oral dosage forms, powders, immediate release formulations, controlled release formulations, fast melt formulation
  • the compoundsdescribed herein may be used in combination with one or more antibiotics in the treatment of bacterial infections. Such antibiotics may be administered, by a route and in an amount commonly used therefore, contemporaneously or sequentially with a compound described herein.
  • a pharmaceutical composition in unit dosage form containing such other drugs and the compound of the present invention is preferred.
  • the combination therapy may also include therapies in which the compound described herein and one or more antibiotic are administered on different overlapping schedules. It is also contemplated that when used in combination with one or more antibiotics, the antibiotics may be used in lower doses than when each is used singly.
  • compositions of the present invention also include those that contain one or more antibiotics, in addition to a compound described herein.
  • antibiotics in addition to a compound described herein.
  • a pharmaceutical composition comprising a compound described hereinfurther comprises a beta-lactam antibiotic.
  • the beta-lactam antibiotic is a penicillin, cephalosporin, carbapenem, monobactam, bridged monobactam, or a combination thereof.
  • the compounds described herein are used in combination with one or more antibiotics in the treatment of bacterial infections.
  • the bacterial infection is a upper or lower respiratory tract infection, a urinary tract infection, a intra-abdominal infection, or a skin infection.
  • the bacterial infection is an upper or lower respiratory tract infection, a urinary tract infection, an intra-abdominal infection, or a skin infection.
  • the bacterial infection is uncomplicated or complicated urinary tract infections, uncomplicated or complicated gonorrhea, upper or lower respiratory tract infections, skin or skin structure infections, intra-abdominal infections, central nervous system infections, blood stream infections, or systemic infections.
  • the one or more antibiotics are selected from b-lactam antibiotics.
  • b- Lactam antibiotics include, but are not limited to, penicillins, penems, carbapenems, cephalosporins, cephamycins, monobactams, or combinations thereof.
  • Penicillins include, but are not limited to, amoxicillin, ampicillin, azidocillin, azlocillin, bacampicillin, benzathinebenzylpenicillin,
  • benzathinephenoxymethylpenicillin benzylpenicillin (G) carbenicillin, carindacillin, clometocillin, cloxacillin, dicloxacillin, epicillin, flucloxacillin, hetacillin, mecillinam, metampicillin, meticillin, mezlocillin, nafcillin, oxacillin, penamecillin, pheneticillin, phenoxymethylpenicillin (V), piperacillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, sulbenicillin, talampicillin, temocillin, and ticarcillin.
  • Penems include, but are not limited to, faropenem.
  • Carbapenems include, but are not limited to, biapenem, ertapenem, doripenem, imipenem, meropenem, and panipenem.
  • Cephalosporins/Cephamycins include, but are not limited to, cefacetrile, cefaclor, cefadroxil, cefalexin, cefaloglycin, cefalonium, cefaloridine, cefalotin, cefamandole, cefapirin, cefatrizine, cefazaflur, cefazedone, cefazolin, cefbuperazone, cefcapene, cefdaloxime, cefdinir, cefditoren, cefepime, cefetamet, cefixime, cefmenoxime, cefmetazole, cefminox, cefodizime, cefonicid, cefoperazone,
  • the present disclosure also provides methods for inhibiting bacterial growth, such methods comprising contacting a bacterial cell culture, or a bacterially infected cell culture, tissue, or organism, with a penicillin-binding protein inhibitor described herein.
  • the bacteria to be inhibited by administration of a penicillin-binding protein inhibitor described herein are bacteria that are resistant to beta-lactam antibiotics.
  • resistant is well-understood by those of ordinary skill in the art (see, e g Payne et al., Antimicrobial Agents and Chemotherapy 38767-772 (1994), Hanaki et al., Antimicrobial Agents and Chemotherapy 301120-1126 (1995)).
  • the penicillin- binding protein inhibitor described herein is used to treat a bacterial infection that is resistant to beta- lactam antibiotic. In some embodiments, the penicillin-binding protein inhibitor described hereinis used to treat a bacterial infection that has developed beta-lactamase enzymes.
  • a compound described herein is administered to an experimental cell culture in vitro to prevent the growth of beta-lactam resistant bacteria.
  • a compound described herein is administered to a mammal, including a human, to prevent the growth of beta-lactam resistant bacteria in vivo.
  • the method according to this embodiment comprises administering a therapeutically effective amount of a penicillin-binding protein inhibitor described hereinfor a therapeutically effective period of time to a mammal, including a human.
  • the penicillin-binding protein inhibitor described herein is administered in the form of a pharmaceutical composition as described above.
  • methods of treating a bacterial infection comprises administering to a subject a pharmaceutical composition comprising a compound described herein, or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, and a pharmaceutically acceptable excipient.
  • the methods of treating a bacterial infection in a subject comprises administering to the subject a pharmaceutical composition as described herein.
  • the bacterial infection is an upper or lower respiratory tract infection, a urinary tract infection, an intra-abdominal infection, or a skin infection.
  • the bacterial infection is an upper or lower respiratory tract infection, a urinary tract infection, an intra-abdominal infection, or a skin infection.
  • the bacterial infection is uncomplicated or complicated urinary tract infections, uncomplicated or complicated gonorrhea, upper or lower respiratory tract infections, skin or skin structure infections, intra-abdominal infections, central nervous system infections, blood stream infections, or systemic infections.
  • the infection that is treated or prevented is cause by a bacteria that includes Pseudomonas aeruginosa, Pseudomonas fluorescens, Pseudomonas acidovorans,
  • Pseudomonas alcaligenes Pseudomonas putida, Stenotrophomonas maltophilia, Burkholderia cepacia, Aeromonas hydrophilia, Escherichia coli, Citrobacter freundii, Salmonella typhimurium, Salmonella typhi, Salmonella paratyphi, Salmonella enteritidis, Shigella dysenteriae, Shigella flexneri, Shigella sonnei, Enterobacter cloacae, Enterobacter aerogenes, Klebsiella pneumoniae, Klebsiella oxytoca, Serratia marcescens, Francisella tularensis, Morganella morganii, Proteus mirabilis, Proteus vulgaris, Providencia alcalifaciens, Providencia rettgeri, Providencia stuartii, Acinetobacter baumannii, Acinetobacter calcoaceticus, A
  • the infection that is treated or prevented is caused by a bacteria that includes Pseudomonas aeruginosa, Pseudomonas fluorescens, Stenotrophomonas maltophilia, Escherichia coli, Citrobacter freundii, Salmonella typhimurium, Salmonella typhi, Salmonella paratyphi, Salmonella enteritidis, Shigella dysenteriae, Shigella flexneri, Shigella sonnei,
  • Enterobacter cloacae Enterobacter aerogenes, Klebsiella pneumoniae, Klebsiella oxytoca, Serratia marcescens, Acinetobacter calcoaceticus, Acinetobacter haemolyticus, Yersinia enterocolitica, Yersinia pestis, Yersinia pseudotuberculosis, Yersinia intermedia, Haemophilus influenzae,
  • Haemophilus parainfluenzae Haemophilus haemolyticus, Haemophilus parahaemolyticus,
  • Helicobacter pylori Campylobacter fetus, Campylobacter jejuni, Campylobacter coli, Vibrio cholerae, Vibrio parahaemolyticus, Legionella pneumophila, Listeria monocytogenes, Neisseria gonorrhoeae, Neisseria meningitidis, Moraxella catarrhalis, Bacteroides fragilis, Bacteroides vulgatus, Bacteroides ovalus, Bacteroides thetaiotaomicron, Bacteroides uniformis, Bacteroides eggerthii, or Bacteroides splanchnicus.
  • the infection that is treated or prevented is caused by a
  • the infection that is treated or prevented is caused by a bacteria that includes Escherichia spp, Klebsiella spp., Enterobacter spp., Citrobacter spp., Morganella spp., Proteus spp., Salmonella spp., Serratia spp., Shigella spp., or Yersinia spp.
  • the compounds disclosed herein are useful in the treatment or prevention of infection associated with non-fermenting bacteria. In some embodiments, the compounds disclosed herein are useful in the treatment or prevention of infection associated with non- fermenting gram-negative bacteria.
  • the non-fermenting gram-negative bacteria is Pseudomonas aeruginosa, Acinetobacter spp. (A. baumannii/ A. calcoaceticus), Stenotrophomonas maltophilia, Elizabethkingia spp (E. meningoseptica/ E. anophelis, Burkholderia cepacia complex, Burkholderia pseudomallei,or Burkholderia mallei.
  • the infection that is treated or prevented is turberculosis. In some embodiments, the infection that is treated or prevented is caused by Mycobacterium tuberculosis. In some embodiments, the infection that is treated or prevented is caused by a bacteria that is a non-TB mycobacterial species. In some embodiments, the non-TB mycobacterial species is M. abscessus, M. canum, M. bovis, M. africanum, or M. caprae.
  • the infection that is treated or prevented is gonorrhea. In some embodiments, the infection that is treated or prevented is caused by Neisseria gonorrhoeae.
  • the infection that is treated or prevented is meningitis and other forms of meningococcal disease such as meningococcemia. In some embodiments, the infection that is treated or prevented is caused by Neisseria meningitidis. [00175] In some embodiments of the methods described herein, the compound described herein is not administered with a b-lactam antibiotic. In some embodiments of the methods described herein, the compound described herein is not administered with a b-lactamase inhibitor. In some
  • the compound described herein is not administered with a combination of a b-lactam antibiotic and a b-lactamase inhibitor.
  • the starting materials and intermediates for the compounds of this invention may be prepared by the application or adaptation of the methods described below, their obvious chemical equivalents, or, for example, as described in literature such as The Science of Synthesis, Volumes 1-8. Editors E. M. Carreira et al. Thieme publishers (2001-2008).
  • the use of protective groups may be as described in methodology compendia such as Greene's Protective Groups in Organic Synthesis, Fourth Edition. John Wiley & Sons, Inc.2006.
  • Certain compounds of Formula I are prepared from the corresponding functional-group-protected boronic acid esters A by treatment with a Lewis acid in a solvent such as dichloromethane, at a temperature between -78 °C and 0 °C followed by an aqueous quench.
  • Amide intermediates A may be prepared according to the route outlined in Scheme 2.
  • Chloro-boronates B prepared by methods described previously (e.g. see WO2014089365), is reacted with silylamine bases such as lithium hexamethyldisilazide, and the intermediate silylamine is treated with carboxylic acids C under amide coupling conditions (such as with carbodiimide dehydrating reagents, HATU, or other coupling reagents) to provide protected amides A.
  • carboxylic acids C under amide coupling conditions (such as with carbodiimide dehydrating reagents, HATU, or other coupling reagents) to provide protected amides A.
  • carboxylic acids C under amide coupling conditions
  • the above silyamine intermediate is allowed to react with acid chlorides to provide A.
  • Carboxylic acids (C) or acid chlorides (D) may be obtained from commercial sources, prepared according to known methods in the literature, or prepared by a number of different reaction sequences.
  • Formation of the acid chloride (D) involves treatment of (C) with a chlorinating agent such as thionyl chloride, phosphorous pentachloride or oxalyl chloride, in a solvent such as dichloromethane, in the presence of a catalyst such as DMF, at around room temperature. In certain cases, DMF is also used as a co-solvent.
  • a chlorinating agent such as thionyl chloride, phosphorous pentachloride or oxalyl chloride
  • a solvent such as dichloromethane
  • DMF is also used as a co-solvent.
  • Formation of the anhydride (E) involves treatment of (C) with a sterically hindered acid chloride or chloroformate, such as trimethylacetyl chloride or isopropylchloroformate, in an inert solvent such as dichloromethane, in the presence of a non-nucleophilic base, such as triethyl amine or diisopropylamine at room temperature or below.
  • Formation of the activated ester (F) involves treatment of (C) with an activating reagent system such as EDCI, DCC/HOBt, HATU, BOP reagents or TBTU, in a solvent such as DMF, DMA, NMP or dichloromethane at room temperature or below
  • the boronic acids L may be converted into protected boronate esters M by treatment with 1,2-diols, such as (+)- pinanediol or pinacol.
  • aryl halides K may be converted to boronate esters M by transition-metal-catalyzed reaction with diboron compounds, for example bis[(+)- pinanediolato]diboron and palladium catalysts.
  • diboron compounds for example bis[(+)- pinanediolato]diboron and palladium catalysts.
  • Two sequential Matteson reactions as described previously, provide chloroboronates B bearing a wide range of substituents R a , R b , and R c .
  • Another variant consists of reaction of K with chloromethyl boronate J and isopropylmagnesium chloride to provide desired intermediate N directly.
  • Step 1 Synthesis of ethyl 2-(2-aminothiazol-4-yl)-2-((tert-butoxycarbonyl)amino)acetate.
  • Step 2 Synthesis of ethyl 2-((tert-butoxycarbonyl)amino)-2-(2-((tert- butoxycarbonyl)amino)thiazol-4-yl)acetate.
  • Step 3 Synthesis of 2-((tert-butoxycarbonyl)amino)-2-(2-((tert-butoxycarbonyl)amino)thiazol-4- yl)acetic acid.
  • Step 4 Synthesis of (R)-3-((R)-2-amino-2-(2-aminothiazol-4-yl)acetamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid and (R)-3-((S)-2-amino-2-(2- aminothiazol-4-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • Example 3 and Example 4 were prepared from the above acid. MS m/z 363 (MH) + .
  • Step 1 Synthesis of ethyl 2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-((tert- butoxycarbonyl)amino)acetate.
  • Step 1 Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-((tert- butoxycarbonyl)amino)acetamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 3 Synthesis of tert-butyl 3-((2R)-2-(2-(2-((((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(3- ethylureido)acetamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 4 Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(3-ethylureido)acetamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • Step 1 Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2- (pyridine-3-sulfonamido)acetamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 2 Synthesis of tert-Butyl 3-((2R)-2-((S)-2-(4-Ethyl-2,3-dioxopiperazine-1-carboxamido)- propanamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 2(a) The reaction mixture generated in Step 2(a) was added and stirring was continued for 12 h.
  • the reaction mixture was diluted with water (20 mL) and extracted three times with diethyl ether (30 ml each). The combined organic extracts were dried on Na 2 SO 4 , then filtered, and the solvent was evaporated under reduced pressure.
  • Step 3 (R)-3-((S)-2-(4-Ethyl-2,3-dioxopiperazine-1-carboxamido)propanamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • Step 1 Synthesis of methyl 2-(5-amino-1,2,4-thiadiazol-3-yl)-2-(methoxyimino)acetate.
  • (Z)-2-(5-Amino-1,2,4-thiadiazol-3-yl)-2-(methoxyimino)acetic acid (9.1 g, 45 mmol) was dissolved in 3 M HCl in methanol (150 mL), heated at 60 °C for 8 h, then at 45-50 °C overnight.
  • Step 2 Synthesis of 2-(5-(((benzyloxy)carbonyl)amino)-1,2,4-thiadiazol-3-yl)-2-((tert- butoxycarbonyl)amino)acetic acid.
  • Step 3 Synthesis of tert-butyl 3-((2R)-2-(2-amino-2-(5-(((benzyloxy)carbonyl)amino)-1,2,4- thiadiazol-3-yl)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 4 Synthesis of (3R)-3-(2-(5-amino-1,2,4-thiadiazol-3-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • Step 1 Synthesis of 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- methylbutanoic acid.
  • Step 1a Synthesis of methyl 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- methylbutanoate.
  • Step 1b Synthesis of 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- methylbutanoic acid.
  • Step 3 Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4-(2- fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 4 Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)-5-chlorothiazol-4- yl)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate.
  • Step 4 Synthesis of tert-butyl 5-fluoro-2-methoxy-3-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate.
  • Step 6 Synthesis of tert-butyl 3-((2S)-2-chloro-2-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5-fluoro-2-methoxybenzoate.
  • Step 7 Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4- ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5-fluoro-2-methoxybenzoate.
  • Step 8 Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-6-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
  • the aqueous layer was acidified to pH ⁇ 2-3 with 1N HCl and extracted three times with ethyl acetate. Combined organic layers were dried over MgSO 4 , filtered, and concentrated to afford the title compound (0.22 g, 15%).
  • Step 2 Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4- ethyl-3-oxopiperazine-1-carboxamido)acetamido)-2-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 1 Synthesis of benzyl (S)-2-((tert-butoxycarbonyl)amino)-4-(ethyl-2,3-dioxopiperazin-1-yl)- 4-oxobutanoate.
  • Step 2 Synthesis of (S)-2-((tert-butoxycarbonyl)amino)-4-(4-ethyl-2,3-dioxopiperzin-1-yl)-4- oxobutanoic acid.
  • Step 3 Synthesis of tert-butyl 3-((2R)-2-((S)-2-((tert-butoxycarbonylamino)-4-(4-ethyl-2,3- dioxopiperazin-1-yl)-4-oxobutanamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 4 Synthesis of (R)-3-((S)-2-amino-4-(4-ethyl-2,3-dioxopiperazin-1-yl)-4-oxobutanamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • Example 29 In a similar manner to the synthesis of Example 5, utilizing 2-amino-2-(3,4,5- trimethoxyphenyl)acetic acid in place of 2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4- yl)acetic acid in Step 4, and utilizing BCl 3 in the final deprotection reaction, the Example 29 and Example 30 were prepared.
  • Example 30 ESI-MS m/z 599 (MH) + .
  • Step 1 Synthesis of tert-butyl 3-((R)-2-((R)-3-((tert-butoxycarbonyl)amino)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)propanamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 2 Synthesis of tert-butyl 3-((R)-2-((R)-3-amino-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
  • Step 3 Synthesis of (3R)-3-(2,3-bis(4-ethyl-2,3-dioxopiperazine-1-carboxamido)propanamido)- 2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • Step 1 Synthesis of ethyl 2-((tert-butoxycarbonyl)amino)-2-(6-methoxypyridin-3-yl)acetate.
  • Step 2 Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6- methoxypyridin-3-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
  • EXAMPLE 36 (3R)-3-(3-(2,3-dihydroxybenzamido)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
  • Step 1 Synthesis of 2-((tert-butoxycarbonyl)amino)-2-(2-chloro-3,4-dimethoxyphenyl)acetic acid.
  • Step 2 Synthesis of tert-butyl 3-((2R)-2-(2-amino-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)- 2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl)ethyl)-2-methoxybenzoate.
  • Step 3 By following the same experimental procedurs of Step 1, Step 2 of Example 6, the title compound was prepared from the above product as HCl salt.
  • ESI-MS m/z 657/659 (MH/MH+2) + .
  • EXAMPLE 38 (R)-3-((S)-2-(3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
  • Example 38 and Example 39 were prepared by separation of diastereomeric mixture of Example 22 using a Zorbax column from Agilent Technologies (SB-C18 Prep HT column 30 x 150mm 5-micron), mobile phase: 10%-30% CH 3 CN-H 2 O, flow rate: 45 mL/min, gradient time: 15 min, Example 38 was isolated as the first eluting peak, Example 39 isolated as the second eluting peak.
  • ESI-MS m/z 541 (M+H) + .
  • Step 1 (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6-methoxypyridin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • EXAMPLE 42 (3R)-3-(3-(3-bromo-4,5-dihydroxyphenyl)-3-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
  • Example 81 In a similar manner to the synthesis of Example 62, the fully protected precursor of Example 81 and Example 82 was converted to the title compound by treatment with NCS followed by BBr 3 .
  • EXAMPLE 46 (3R)-3-(3-(3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)-3-hydroxypropanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
  • EXAMPLE 48 (3R)-3-(3-(2,3-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)-3-hydroxypropanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
  • EXAMPLE 50 (3R)-3-(2-(3-(2-(((benzyloxy)carbonyl)amino)ethoxy)-4-hydroxyphenyl)-2-(4- ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
  • Step 1 Synthesis of benzyl (2-(2-(benzyloxy)-5-formylphenoxy)ethyl)carbamate.
  • Step 2 Synthesis of (3R)-3-(2-(3-(2-aminoethoxy)-4-hydroxyphenyl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid, and (3R)-3-(2-(3-(2- (((benzyloxy)carbonyl)amino)ethoxy)-4-hydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • Example 49 ESI-MS m/z 584 (MH) + ;
  • Example 50 ESI-MS m/z 718 (MH) + .
  • EXAMPLE 54 (3R)-3-(2-(3,5-dimethyl-1H-pyrazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
  • EXAMPLE 56 (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
  • Step 1 Synthesis of lithium 2-((tert-butoxycarbonyl)amino)-2-(pyridin-2-yl)acetate.
  • Step 2 Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • the title compound was prepared using an adaption of a literature procedure (Li, Z., et al., Proc. Nat. Acad. Sci.2013, 100, 414-419). To a stirred solution of the title compound of Example 55 (26.4 mg.0.043 mmol) and 2-bromoacetamide (7.1 mg, 0.051 mmol) in 0.25 mL acetonitrile, was added a saturated aqueous solution of NaHCO 3 (0.05 mL) at 0 °C. The reaction mixture was allowed to warm to room temperature and stirred for 5h.
  • EXAMPLE 60 (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1-methyl-1H-pyrazol- 4-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
  • Step 1 Synthesis of methyl 2-((tert-butoxycarbonyl)amino)-2-(4-morpholinophenyl)acetate.
  • Step 2 Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- morpholinophenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
  • Step 1a Synthesis of 2-amino-2-(1-((benzyloxy)methyl)cyclopropyl)acetonitrile.
  • Step 1b Synthesis of methyl 2-amino-2-(1-((benzyloxy)methyl)cyclopropyl)acetate.
  • Step 2 Synthesis of (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1- (hydroxymethyl)cyclopropyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
  • EXAMPLE 64 (3R)-3-(2-(4-(2-aminoethyl)phenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
  • Step 1 Synthesis of methyl 2-(4-(2-(((benzyloxy)carbonyl)amino)ethyl)phenyl)-2-((tert- butoxycarbonyl)amino)acetate.
  • Step 2 Synthesis of (3R)-3-(2-(4-(2-aminoethyl)phenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • EXAMPLE 65 (3R)-3-(2-(2-chloro-6-methoxypyridin-3-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
  • Step 1 Synthesis of O-(2-amino-2-oxoethyl)-N-(tert-butoxycarbonyl)-D-allothreonine.
  • Step 2 Synthesis of (R)-3-((2R,3R)-3-(2-amino-2-oxoethoxy)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)butanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
  • EXAMPLE 68 (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- (sulfamoylamino)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid

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Abstract

Described herein are certain boron-containing compounds, compositions, preparations and their use as modulators of the transpeptidase function of bacterial penicillin-binding proteins and as antibacterial agents. In some embodiments, the compounds described herein inhibit penicillin-binding proteins. In certain embodiments, the compounds described herein are useful in the treatment of bacterial infections.

Description

PENICILLIN-BINDING PROTEIN INHIBITORS CROSS-REFERENCE
[001] This application claims the benefit of U. S. Provisional Application Serial No.62/676,793 filed May 25, 2018, and U. S. Provisional Application Serial No.62/772,056 filed November 27, 2018, which are hereby incorporated by reference in their entirety. STATEMENT AS TO FEDERALLY SPONSORED RESEARCH
[002] This invention was made with the support of the United States government under SBIR Grant number 5R43AI094827 by the National Institutes of Health (NIH), Federal Award 6
IDSEP16030-01-02, subaward 4500002377, awarded by the Health and Human Services Office of the Assistant Secretary for Preparedness and Response (HHS/ASPR) under the CARB-X Pass Through Entity, and contract HDTRA117C0070, awarded by the Defense Threat Reduction Agency (DTRA) of the Department of Defense. The government has certain rights in the invention. BACKGROUND OF THE INVENTION
[003] Antibiotics are the most effective drugs for curing bacteria-related infectious diseases clinically. They are incredibly valuable therapeutic options that are currently losing efficacy due to the evolution and spread of drug resistance genes, leading to multidrug resistance bacterial organisms. Among the different classes of antibiotics, the penicillin-binding protein-targeting beta-lactams (e.g. penicillins, cephalosporins, and carbapenems) are the most widely used antibiotic class because they have a strong bactericidal effect and low associated toxicity.
[004] Penicillin Binding Proteins (PBPs) are a family of essential bacterial enzymes involved in the synthesis of peptidoglycan, the major structural polymer found in the bacterial cell wall. Beta- lactam antibiotics bind with high affinity to PBPs and inhibit their transpeptidase function, resulting in disruption of peptidoglycan cell wall synthesis and rapid cell lysis of actively dividing bacteria. As there are no close mammalian homologues to PBPs, and beta-lactams are well-regarded for their safety and efficacy, PBPs represent an ideal target for antibacterials. SUMMARY OF THE INVENTION
[005] Described herein are compounds that inhibit the activity of penicillin-binding proteins, the bacterial enzyme class targeted by the beta lactam antibiotics and do provide significant antibacterial activity in vitro.
[006] Also provided herein are compounds of Formula (Ia) or (Ib), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof: wherein:
Figure imgf000003_0002
L1 is -(CR1R2)n-;
L2 is -(CR1R2)m-;
L2’ is absent, -C(=O)NH-, -NHC(=O)-, or -CH2NH-;
L3 is -C(=O)-, -S(=O)-, or -S(=O)2-; A1 is
Figure imgf000003_0001
Ring A is a 6-membered aryl or a 6-membered heteroaryl;
each R1 and R2 is independently hydrogen, halogen, optionally substituted alkyl, -OH, -OR34, - SR35, -NR32R33, -NR32C(=O)R34, -C(=O)NR32R33, -NR32S(=O)2R34, ­C(=O)OH, ­C(=O)OR34, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R1 and R2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl;
R8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R20 and R21 is independently hydrogen, halogen, or optionally substituted alkyl;
R22 and R23 are independently hydrogen or optionally substituted alkyl; or
R22 and R23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R30, R31, R50, and R51 is independently hydrogen, halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR24, -SR25, -NR22R23, - NR22C(=O)R24, -C(=O)NR22R23, -NR22S(=O)2R24, ­C(=O)OH, or ­C(=O)OR24; or
R30 and R31, or R50 and R51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
two R30 or two R50 on adjacent carbons are taken together to form an alkenyl; or
two R30 and two R31, or two R50 and two R51 on adjacent carbons are taken together to form an alkynyl;
R32, R33, R52, R53, R82, and R83 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene-glycol)-ethyl, optionally substituted saccharide, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24; or
R32 and R33, or R52 and R53, or R82 and R83 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R34, R54, and R84 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R35 and R55 are independently hydrogen, optionally substituted alkyl, optionally substituted
cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R36 and R56 are independently hydrogen, -OH, -OR24, -CN, -NO2, -NR22R23, or optionally
substituted alkyl;
Z is hydrogen, R61, -(R60)qOR61, -(R60)qO(R60)qOR61, -R60OC(=O)R61, -R60OC(=O)OR61, - R60OC(=O)NHR61, -R60OC(=O)N(R61)2, optionally substituted alkyloxyalkyl, optionally substituted acyloxyalkyl, optionally substituted alkyloxycarbonyloxyalkyl, optionally substituted cycloalkyloxycarbonyloxyalkyl, optionally substituted aryloxycarbonyloxyalkyl, or optionally substituted alkyl-[1,3]dioxol-2-one;
each R60 is independently -CH2-, -CH(CH3)-, -C(CH3)2-, or optionally substituted 1,1’- cyclopropylene;
each R61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
two R61 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R74 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, -OH, -OR84, -NR82R83, -C(=O)OH, or -C(=O)OR84;
Ra, Rb, and Rc are independently hydrogen, halogen, cyano, optionally substituted alkyl,
optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51) 52
vC(=O)OR54, - NR (CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, - S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51)vN(R52)(CR50R51) 50
vC(=O)OH, ­(CR R51)vOH, -(CR50R51)vOR54, - (CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53,
­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, - (CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or - (CR50R51)vheteroaryl;
Rd is hydrogen, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, -(CR20R21)vC(=O)OH, -C(=O)R24,
optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
each Re is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
substituted cycloalkyl;
RX is optionally substituted alkyl or optionally substituted cycloalkyl;
X1 and X2 are independently -OH, -ORX, or F; or
X1 and X2 are taken together with the boron atom to which they are attached to form a cyclic boronate ester;
each Y is independently halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -heteroaryl-NR32R33, -heterocycloalkyl-NR32R33, -heteroaryl- N(R32)C(=NR32)NR32R33, -heterocycloalkyl-N(R32)C(=NR32)NR32R33, -OH, -OR34, - O(CR30R31)wOH, -O(CR30R31)wOR34, -O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, - O(CR30R31)wNR32C(=O)OR34, -O(CR30R31)wNR32C(=O)NR32R33, - O(CR30R31)wC(=O)NR32R33, -O(CR30R31)wNR32S(=O)0,1,2R34, - O(CR30R31)wNR32S(=O)0,1,2NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -OC(=O)R34, -OC(=O)(CR30R31)vNR32R33, -OC(=O)NR32R33, -OC(=O)OR34, -OC(=O)NR32(CR30R31)wNR32R33, -O-heteroaryl, -O-heterocycloalkyl, - O(CR30R31)vheteroaryl, -O(CR30R31)vheterocycloalkyl, -O(CR30R31)wNR32-heteroaryl, - O(CR30R31)wNR32-heterocycloalkyl, -O(CR30R31)wO-heterocycloalkyl, -NR32R33, - NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -NR32(CR30R31)wOR34, -NR32C(=O)R34, - NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, -NR32C(=O)NR32R33, - NR32C(=O)NR32(CR30R31)wNR32R33, -NR32(CR30R31)wS(=O)0,1,2R34, - NR32(CR30R31) 32
wS(=O)0,1,2NR32R33, -NR (CR30R31)wNR32R33S(=O)0,1,2R34, - NR32(CR30R31)wNR32S(=O)0,1,2NR32R33, -NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, - NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, - NR32(CR30R31)vCO2H, -NR32(CR30R31)vCO2R34, -NR32(CR30R31)vC(=O)NR32R33, -N(R32)- heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, -NR32(CR30R31)vheteroaryl, - NR32(CR30R31)vheterocycloalkyl, -NR32(CR30R31)wNR32-heteroaryl, -NR32(CR30R31)wNR32- heterocycloalkyl, -CN, -(CR30R31)vCN, -(CR30R31) 0
vNR32R33, -(CR3 R31)vOH, -(CR30R31)vOR34, -(CR30R31)vOC(=O)R34, -(CR30R31)vOC(=O)NR32R33, -(CR30R31)vO(CR30R31)wOR34, - (CR30R31)vO(CR30R31)wOH, -(CR30R31)vO(CR30R31)wNR32R33, -(CR30R31)vNR32(CR30R31)wOH, -(CR30R31) 31
vNR32(CR30R31)wOR34, -(CR30R31)vC(=O)NR32R33, -(CR30R )vC(=O)OH, - (CR30R31)vC(=O)OR34, -(CR30R31)vC(=O)NR32(CR30R31)wNR32R33, - (CR30R31)vC(=O)NR32(CR30R31)wOR34, -(CR30R31)vN(R32)C(=O)R34, - (CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, -(CR30R31)vN(R32)C(=O) (CR30R31)vNR32R33, -(CR30R31)vN(R32)S(=O)0,1,2R34, -(CR30R31)vN(R32)S(=O)0,1,2NR32R33 - (CR30R31)vS(=O)0,1,2NR32R33, -(CR30R31)vNR32(CR30R31)wNR32R33, - (CR30R31)vN(R32)CH(=NR36), -(CR30R31)vN(R32)C(=NR36)R34, -(CR30R31)vC(=NR36)NR32R33, -(CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -(CR30R31)vheterocycloalkyl-NR32R33, -(CR30R31)vheteroaryl- N(R32)C(=NR36)NR32R33, -(CR30R31)vheterocycloalkyl-N(R32)C(=NR36)NR32R33, - (CR30R31)vheteroaryl, -(CR30R31)vheterocycloalkyl, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, -C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, -S(=O)1,2R34, -SR35, - S(=O)0,1,2(CR30R31)wNR32R33, -S(=O)0,1,2(CR30R31)wOH, -S(=O)0,1,2(CR30R31)wOR34, - S(=O)0,1,2NR32R33, -S(=O)0,1,2NR32(CR30R31)wNR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)R34, -S(=O)0,1,2(CR30R31)vC(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, -Si(R34)3, -NR32R33R34+Q-, - (CR30R31)vNR32R33R34+Q-, -NR32(CR30R31)wNR32R33R34+Q-, - NR32R34+(CR30R31)wNR32R33R34+Q- 2, -(CR30R31)v(T)+Q-, or -O(CR30R31)wNR32R33R34+Q-; or two Ys taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl;
Q is a pharmaceutically acceptable counterion;
n is 0-3;
m is 0-3;
p is 1-3;
each q is independently 2-6;
each v is independently 1-5; and
each w is independently 2-5.
[007] Also provided herein are compounds of Formula (IIa) or (IIb), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
wherein:
Figure imgf000007_0001
G is -NR8-, -C(R10)2-, or -C(R10)2NR8-;
L1 is -(CR1R2)n-;
L2 is -(CR1R2)m-; A1 is
Figure imgf000007_0002
Ring A is a 6-membered aryl or a 6-membered heteroaryl ;
R1, R2, and R9 are independently hydrogen, halogen, optionally substituted alkyl, -OH, -OR34, - SR35, -NR32R33, -NR32C(=O)R34, -C(=O)NR32R33, -NR32S(=O)2R34, ­C(=O)OH, ­C(=O)OR34, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or R1 and R2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
R8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R8 and R9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl;
each R10 is independently hydrogen, halogen, or optionally substituted alkyl;
each R20 and R21 is independently hydrogen, halogen, or optionally substituted alkyl;
R22 and R23 are independently hydrogen or optionally substituted alkyl; or
R22 and R23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R30, R31, R50, and R51 is independently hydrogen, halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR24, -SR25, -NR22R23, - NR22C(=O)R24, -C(=O)NR22R23, -NR22S(=O)2R24, ­C(=O)OH, or ­C(=O)OR24; or
R30 and R31, or R50 and R51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
two R30 or two R50 on adjacent carbons are taken together to form an alkenyl; or
two R30 and two R31, or two R50 and two R51 on adjacent carbons are taken together to form an alkynyl;
R32, R33, R52, and R53 are independently hydrogen, optionally substituted alkyl, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene-glycol)-ethyl, optionally substituted saccharide, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24; or
and R33, or R52 and R53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R34, and R54 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R35 and R55 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R36 and R56 are independently hydrogen, -OH, -OR24, -CN, -NO2, -NR22R23, or optionally substituted alkyl;
each R60 is independently -CH2-, -CH(CH3)-, -C(CH3)2-, or optionally substituted 1,1’- cyclopropylene;
each R61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
two R61 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
each W1 and W2 is independently -C(=O)- or -C(R91)2-;
R90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, - S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24;
each R91 is independently hydrogen, halogen, -OH, -CN, NH2, NO2, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
Ra, Rb, and Rc are independently hydrogen, halogen, cyano, optionally substituted alkyl,
optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, - S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, - (CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53,
­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, - (CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or - (CR50R51)vheteroaryl;
Rd is hydrogen, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, -(CR20R21)vC(=O)OH, -C(=O)R24,
optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
each Re is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
substituted cycloalkyl; RX is optionally substituted alkyl or optionally substituted cycloalkyl;
X1 and X2 are independently -OH, -ORX, or F; or
X1 and X2 are taken together with the boron atom to which there are attached to form a cyclic boronate ester;
each Y is independently halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -heteroaryl-NR32R33, -heterocycloalkyl-NR32R33, -heteroaryl- N(R32)C(=NR32)NR32R33, -heterocycloalkyl-N(R32)C(=NR32)NR32R33, -OH, -OR34, - O(CR30R31)wOH, -O(CR30R31)wOR34, -O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, - O(CR30R31)wNR32C(=O)OR34, -O(CR30R31)wNR32C(=O)NR32R33, - O(CR30R31)wC(=O)NR32R33, -O(CR30R31)wNR32S(=O)0,1,2R34, - O(CR30R31)wNR32S(=O)0,1,2NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -OC(=O)R34, -OC(=O)(CR30R31)vNR32R33, -OC(=O)NR32R33, -OC(=O)OR34, -OC(=O)NR32(CR30R31)wNR32R33, -O-heteroaryl, -O-heterocycloalkyl, - O(CR30R31)vheteroaryl, -O(CR30R31)vheterocycloalkyl, -O(CR30R31)wNR32-heteroaryl, - O(CR30R31)wNR32-heterocycloalkyl, -O(CR30R31)wO-heterocycloalkyl, -NR32R33, - NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -NR32(CR30R31)wOR34, -NR32C(=O)R34, - NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, -NR32C(=O)NR32R33, - NR32C(=O)NR32(CR30R31)wNR32R33, -NR32(CR30R31)wS(=O)0,1,2R34, - NR32(CR30R31)wS(=O)0,1,2NR32R33, -NR32(CR30R31)wNR32R33S(=O)0,1,2R34, - NR32(CR30R31)wNR32S(=O)0,1,2NR32R33, -NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, - NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, - NR32(CR30R31)vCO2H, -NR32(CR30R31)vCO2R34, -NR32(CR30R31)vC(=O)NR32R33, -N(R32)- heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, -NR32(CR30R31)vheteroaryl, - NR32(CR30R31)vheterocycloalkyl, -NR32(CR30R31)wNR32-heteroaryl, -NR32(CR30R31)wNR32- heterocycloalkyl, -CN, -(CR30R31)vCN, -(CR30R31)vNR32R33, -(CR30R31)vOH, -(CR30R31)vOR34, -(CR30R31)vOC(=O)R34, -(CR30R31)vOC(=O)NR32R33, -(CR30R31)vO(CR30R31)wOR34, - (CR30R31)vO(CR30R31)wOH, -(CR30R31)vO(CR30R31)wNR32R33, -(CR30R31)vNR32(CR30R31)wOH, -(CR30R31)vNR32(CR30R31)wOR34, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, - (CR30R31)vC(=O)OR34, -(CR30R31)vC(=O)NR32(CR30R31)wNR32R33, - (CR30R31)vC(=O)NR32(CR30R31)wOR34, -(CR30R31)vN(R32)C(=O)R34, - (CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, - (CR30R31)vN(R32)C(=O)(CR30R31)vNR32R33, -(CR30R31)vN(R32)S(=O)0,1,2R34, - GR Doc et No.41223-728.601
(CR30R31)vN(R32)S(=O)0,1,2NR32R33 -(CR30R31)vS(=O)0,1,2NR32R33, - (CR30R31)vNR32(CR30R31)wNR32R33, -(CR30R31)vN(R32)CH(=NR36), - (CR30R31)vN(R32)C(=NR36)R34, -(CR30R31)vC(=NR36)NR32R33, - (CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -(CR30R31)vheterocycloalkyl-NR32R33, -(CR30R31)vheteroaryl- N(R32)C(=NR36)NR32R33, -(CR30R31)vheterocycloalkyl-N(R32)C(=NR36)NR32R33, - (CR30R31)vheteroaryl, -(CR30R31)vheterocycloalkyl, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, -C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, -S(=O) 35
1,2R34, -SR , - S(=O)0,1,2(CR30R31)wNR32R33, -S(=O)0,1,2(CR30R31)wOH, -S(=O)0,1,2(CR30R31)wOR34, - S(=O)0,1,2NR32R33, -S(=O)0,1,2NR32(CR30R31)wNR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)R34, -S(=O)0,1,2(CR30R31)vC(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, -Si(R34)3, -NR32R33R34+Q-, - (CR30R31)vNR32R33R34+Q-, -NR32(CR30R31)wNR32R33R34+Q-, - NR32R34+(CR30R31)wNR32R33R34+Q- 2, -(CR30R31)v(T)+Q-, or -O(CR30R31)wNR32R33R34+Q-; or two Ys are taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
Z is hydrogen, R61, -(R60)qOR61, -(R60)qO(R60)qOR61, -R60OC(=O)R61, -R60OC(=O)OR61, - R60OC(=O)NHR61, -R60OC(=O)N(R61)2, optionally substituted alkyloxyalkyl, optionally substituted acyloxyalkyl, optionally substituted alkyloxycarbonyloxyalkyl, optionally substituted cycloalkyloxycarbonyloxyalkyl, optionally substituted aryloxycarbonyloxyalkyl, or optionally substituted alkyl-[1,3]dioxol-2-one;
T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl;
Q is a pharmaceutically acceptable counterion;
n is 0-3;
m is 0-3;
p is 1-3;
each q is independently 2-6;
u1 is 1-3;
u2 is 1-3;
each v is independently 1-5; and
each w is independently 2-5.
[008] Also disclosed herein is a pharmaceutical composition comprising a compound disclosed herein and a pharmaceutically acceptable excipient.
[009] Also disclosed herein is a method of treating a bacterial infection in a subject, comprising administering to the subject an effective amount of a compound disclosed herein, or a
pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, or a pharmaceutical composition comprising a compound disclosed herein and a pharmaceutically acceptable excipient.
[0010] Also disclosed herein is method of inhibiting a bacterial penicillin binding protein in a human infected with a bacterial infection, comprising contacting said bacterial penicillin binding protein with an effective amount of compound disclosed herein, or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, or a pharmaceutical composition comprising a compound disclosed herein and a pharmaceutically acceptable excipient. INCORPORATION BY REFERENCE
[0011] All publications, patents, and patent applications mentioned in this specification are herein incorporated by reference to the same extent as if each individual publication, patent, or patent application was specifically and individually indicated to be incorporated by reference. DETAILED DESCRIPTION OF THE INVENTION
[0012] Over the decades of clinical use of beta-lactam antibiotics, bacteria have evolved resistance mechanisms that compromise beta-lactam utility, including production of easily transferable, broad- spectrum beta-lactamases that are able to efficiently hydrolyze the beta lactam ring. These enzymes, now counting >1300 variants, have spread throughout Enterobacteriaceae. The rapid spread of this mechanism of bacterial resistance severely limits beta-lactam therapeutic options.
[0013] Novel non-beta-lactam compounds that inhibit the transpeptidase function of PBPs and are not degraded by beta-lactamases would represent a major advance in the treatment of resistant bacterial infections, essentially circumventing >70 years of bacterial evolution to protect the function of the penicillin-binding proteins in cell wall biosynthesis. The present invention is directed to certain boron-based compounds (boronic acids and cyclic boronic acid esters) which are PBP inhibitors and antibacterial compounds. The compounds and their pharmaceutically acceptable salts are useful for the treatment of bacterial infections, particularly antibiotic resistant bacterial infections. Some embodiments include compounds, compositions, pharmaceutical compositions, use, and preparation thereof.
Definitions
[0014] In the following description, certain specific details are set forth in order to provide a thorough understanding of various embodiments. However, one skilled in the art will understand that the invention may be practiced without these details. In other instances, well-known structures have not been shown or described in detail to avoid unnecessarily obscuring descriptions of the embodiments. Unless the context requires otherwise, throughout the specification and claims which follow, the word“comprise” and variations thereof, such as,“comprises” and“comprising” are to be construed in an open, inclusive sense, that is, as“including, but not limited to.”Further, headings provided herein are for convenience only and do not interpret the scope or meaning of the claimed invention. [0015] Reference throughout this specification to“one embodiment” or“an embodiment” means that a particular feature, structure or characteristic described in connection with the embodiment is included in at least one embodiment. Thus, the appearances of the phrases“in one embodiment” or “in an embodiment” in various places throughout this specification are not necessarily all referring to the same embodiment. Furthermore, the particular features, structures, or characteristics may be combined in any suitable manner in one or more embodiments. Also, as used in this specification and the appended claims, the singular forms“a,”“an,” and“the” include plural referents unless the content clearly dictates otherwise. It should also be noted that the term“or” is generally employed in its sense including“and/or” unless the content clearly dictates otherwise.
[0016] The term“antibiotic” refers to a compound or composition which decreases the viability of a microorganism, or which inhibits the growth or proliferation of a microorganism. The phrase“inhibits the growth or proliferation” means increasing the generation time (i.e., the time required for the bacterial cell to divide or for the population to double) by at least about 2-fold. Preferred antibiotics are those which can increase the generation time by at least about 10-fold or more (e.g., at least about 100-fold or even indefinitely, as in total cell death). As used in this disclosure, an antibiotic is further intended to include an antimicrobial, bacteriostatic, or bactericidal agent. Examples of antibiotics suitable for use with respect to the present invention include penicillins, cephalosporins, and carbapenems.
[0017] The term“b-lactam antibiotic” refers to a compound with antibiotic properties that contains a b-lactam functionality.Non-limiting examples of b-lactam antibiotics useful with respect to the invention include penicillins, cephalosporins, penems, carbapenems, and monobactams.
[0018] The term“b-lactamase” denotes a protein capable of inactivating a b-lactam antibiotic. The b-lactamase can be an enzyme which catalyzes the hydrolysis of the b-lactam ring of a b-lactam antibiotic. Of particular interest herein are microbial b-lactamases. The b-lactamase may be, for example, a serine b-lactamase or a metallo-b-lactamase.
[0019] “Amino” refers to the -NH2 substituent.
[0020] “Oxo” refers to the =O substituent.
[0021] “Oxime” refers to the =N-OH substituent.
[0022] “Thioxo” refers to the =S substituent.
[0023] “Alkyl” refers to a linear or branched hydrocarbon chain, which is fully saturated. Alkyl may have from one to thirty carbon atoms. An alkyl comprising up to 30 carbon atoms is referred to as a C1-C30 alkyl, likewise, for example, an alkyl comprising up to 12 carbon atoms is a C1-C12 alkyl. An alkyl comprising up to 6 carbons is a C1-C6 alkyl. Alkyl groups include, but are not limited to, C1- C30 alkyl, C1-C20 alkyl, C1-C15 alkyl, C1-C10 alkyl, C1-C8 alkyl, C1-C6 alkyl, C1-C4 alkyl, C1-C3 alkyl, C1-C2 alkyl, C2-C8 alkyl, C3-C8 alkyl, C4-C8 alkyl, and C5-C12 alkyl. In some embodiments, the alkyl group is C1-C6 alkyl. Representative alkyl groups include, but are not limited to, methyl, ethyl, n- propyl, 1-methylethyl (isopropyl), n-butyl, i-butyl, s-butyl, n-pentyl, 1,1-dimethylethyl (t-butyl), 2- ethylpropyl, and the like. Representative linear alkyl groups include, but are not limited to, methyl, ethyl, n-propyl, n-butyl, n-pentyl and the like. In some embodiments, the alkyl is substituted with an optionally substituted aryl to form an optionally substituted aralkyl. In some embodiments, the alkyl is substituted with an optionally substituted heteroaryl to form an optionally substituted heteroarylalkyl. In some embodiments, the alkyl is substituted with an optionally substituted cycloalkyl to form an optionally substituted cycloalkylalkyl. In some embodiments, the alkyl is substituted with an optionally substituted heterocycloalkyl to form an optionally substituted heterocycloalkylalkyl. In some embodiments, the alkyl group is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, haloalkyl, alkoxy, aryl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like. In some embodiments, the alkyl is optionally substituted with oxo, halogen, -CN, -CF3, -OH, -OMe, -NH2, or - NO2. In some embodiments, the alkyl is optionally substituted with oxo, halogen, -CN, -CF3, -OH, or -OMe. In some embodiments, the alkyl is optionally substituted with halogen.
[0024] “Alkenyl” refers to a straight or branched hydrocarbon chain, containing at least one carbon-carbon double bond. In certain embodiments, alkenylcomprises two to twelve (C2-C12 alkenyl) carbon atoms, or two to eight carbon atoms (C2-C8 alkenyl), or two to six carbon atoms (C2-C6 alkenyl) or two to four carbon atoms (C2-C4 alkenyl). The alkenyl may be attached to the rest of the molecule by a single bond, for example, ethenyl (i.e., vinyl), prop-1-enyl (i.e., allyl), but-1-enyl, pent- 1-enyl, penta-1,4-dienyl, and the like. Alkenyl may be attached to the rest of the molecule by a double bond, e.g., =CH2, =CH(CH2)3CH3. In some embodiments, the alkenyl group is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, haloalkyl, alkoxy, aryl, cycloalkyl,
heterocycloalkyl, heteroaryl, and the like. In some embodiments, the alkenyl is optionally substituted with oxo, halogen, -CN, -CF3, -OH, -OMe, -NH2, or -NO2. In some embodiments, the alkenyl is optionally substituted with oxo, halogen, -CN, -CF3, -OH, or -OMe. In some embodiments, the alkenyl is optionally substituted with halogen.
[0025] “Alkynyl” refers to a straight or branched hydrocarbon chain group, containing at least one carbon-carbon triple bond. In certain embodiments, alkynyl comprises two to twelve (C2-C12 alkynyl) carbon atoms, or two to eight carbon atoms (C2-C8 alkynyl), or two to six carbon atoms (C2-C6 alkynyl) or two to four carbon atoms (C2-C4 alkynyl). The alkynyl may be attached to the rest of the molecule by a single bond, for example, ethynyl, propynyl, butynyl, pentynyl, hexynyl, and the like. In some embodiments, the alkynyl group is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, haloalkyl, alkoxy, aryl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like. In some embodiments, the alkynyl is optionally substituted with oxo, halogen, -CN, -CF3, -OH, -OMe, -NH2, or -NO2. In some embodiments, the alkynyl is optionally substituted with oxo, halogen, -CN, - CF3, -OH, or -OMe. In some embodiments, the alkynyl is optionally substituted with halogen.
[0026] “Alkylene” or“alkylene chain” refers to a straight or branched divalent hydrocarbon chain linking the rest of the molecule to a radical group, consisting solely of carbon and hydrogen, containing no unsaturation and having, for example, from one to twelve carbon atoms (C1-C12 alkylene),e.g., methylene, ethylene, propylene, n-butylene, and the like. The alkylene chain is attached to the rest of the molecule through a single bond and to the radical group through a single bond. The points of attachment of the alkylene chain to the rest of the molecule and to the radical group are through one carbon in the alkylene chain or through any two carbons within the chain. In certain embodiments, an alkylene comprises one to eight carbon atoms (C1-C8 alkylene), or one to five carbon atoms (C1-C5 alkylene), or one to four carbon atoms (C1-C4 alkylene), or one to three carbon atoms (C1-C3 alkylene), or one to two carbon atoms (C1-C2 alkylene). In other embodiments, an alkylene comprises one carbon atom (C1 alkylene), or two carbon atoms (C2 alkylene). In certain embodiments, an alkylene comprises two to five carbon atoms (e.g., C2-C5 alkylene). In some embodiments, the alkylene is optionally substituted with oxo, halogen, -CN, -CF3, -OH, -OMe, -NH2, or -NO2. In some embodiments, the alkylene is optionally substituted with oxo, halogen, -CN, - CF3, -OH, or -OMe. In some embodiments, the alkylene is optionally substituted with halogen.
[0027] “Alkoxy” refers to a radical of the formula -O-alkyl where alkyl is as defined herein. Unless stated otherwise specifically in the specification, an alkoxy group may be optionally substituted as described above for alkyl.
[0028] “Aryl” refers to an aromatic monocyclic hydrocarbon or aromatic multicyclic hydrocarbon ring system by removing a hydrogen atom from a ring carbon atom. Aryl may include cycles with six to eighteen carbon atoms, where at least one of the rings in the ring system is aromatic, i.e., it contains a cyclic, delocalized (4n+2) ^-electron system in accordance with the Hückel theory. In some embodiments, the aryl is a monocyclic, bicyclic, tricyclic or tetracyclic ring system, which may include fused ring system (when fused with a cycloalkyl or heterocycloalkyl ring, the aryl is bonded through an aromatic ring atom). In some embodiments, the aryl is a 6 to 10-membered aryl. In some embodiments, the aryl is a 6-membered aryl. In some embodiments, the aryl is a 10-membered aryl. The ring system from which aryl groups are derived include, but are not limited to, groups such as benzene, fluorene, indane, indene, tetralin and naphthalene. In some embodiments, the aryl is optionally substituted with halogen, amino, nitrile, nitro, hydroxyl, alkyl, haloalkyl, alkoxy, aryl, aralkyl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like. In some embodiments, the aryl is optionally substituted with halogen, -CN, -Me, -Et, -CF3, -OH, -OMe, -NH2, -NO2, or cyclopropyl. In some embodiments, the aryl is optionally substituted with oxo, halogen, -CN, -Me, -Et, -CF3, -OH, - OMe, or cyclopropyl. In some embodiments, the aryl is optionally substituted with halogen.
[0029] “Aryloxy” refers to a radical bonded through an oxygen atom of the formula -O-aryl, where aryl is as described above.
[0030] “Aralkyl” refers to a radical of the formula -Rh-aryl where Rh is an alkylene chain as defined above, for example, methylene, ethylene, and the like. The alkylene chain part of the aralkyl radical is optionally substituted as described above for an alkylene chain. The aryl part of the aralkyl radical is optionally substituted as described above for an aryl group.
[0031]“Boronate ester” refers to -B(ORk)2 wherein each Rk are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly ethylene glycol) ethyl, or an optionally substituted saccharide provided that they are not both hydrogen. In some embodiments, each Rk is alkyl. In some embodiments, two Rk may be taken together with the atom to which they are attached to form an optionally substituted heterocycle or a cyclic boronate ester. In some embodiments, the cyclic boronate ester is formed from pinanediol, pinacol, 1,2-ethanediol, 1,3-propanediol, 1,2- propanediol, 2,3-butanediol, 1,2-diisopropylethandiol, 5,6-decanediol, 1,2-dicyclohexylethanediol, diethanolamine, 1,2-diphenyl-1,2-ethanediol, 2,6,6-trimethylbicyclo[3.1.1]heptane-2,3-diol, or (1S,2S,3R,5S)-2,6,6-trimethylbicyclo[3.1.1]heptane-2,3-diol.
[0032] “Cycloalkyl”refers to a saturated or partially unsaturated, monocyclic or polycyclic hydrocarbon. In certain embodiments, the cycloalkyl includes fused (when fused with an aryl or a heteroaryl ring, the cycloalkyl is bonded through a non-aromatic ring atom) or bridged ring systems. In certain embodiments, the cycloalkyl comprises from three to twenty carbon atoms (C3-C20 cycloalkyl), or three to ten carbon atoms (C3-C10 cycloalkyl), or three to eight carbon atoms (C3-C8 cycloalkyl), or three to six carbon atoms (C3-C6 cycloalkyl). In some embodiments, the cycloalkyl is a 3- to 6-membered cycloalkyl. In some embodiments, the cycloalkyl is a 3- to 8-membered cycloalkyl. Examples of monocyclic cycloalkyls include, e.g., cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl, cycloheptyl, and cyclooctyl. Polycyclic cycloalkyl include, for example, adamantyl, norbornyl (i.e., bicyclo[2.2.1]heptanyl), norbornenyl, decalinyl, 7,7-dimethyl-bicyclo[2.2.1]heptanyl, and the like. In some embodiments, the cycloalkyl is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, alkyl, haloalkyl, alkoxy, aryl, aralkyl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like. In some embodiments, the cycloalkyl is optionally substituted with oxo, halogen, -CN, -Me, -Et, - CF3, -OH, -OMe, -NH2, -NO2, or cyclopropyl. In some embodiments, the cycloalkyl is optionally substituted with oxo, halogen, -CN, -Me, -Et, -CF3, -OH, -OMe, or cyclopropyl. In some
embodiments, the cycloalkyl is optionally substituted with halogen.
[0033] “Cycloalkylalkyl” refers to a radical of the formula -Rh-cycloalkyl where Rh is an alkylene chain as defined above. The alkylene chain and the cycloalkyl radical are optionally substituted as described above.
[0034] “Halo” or“halogen” refers to bromo, chloro, fluoro, or iodo. In some embodiments, halogen refers to chloro or fluoro.
[0035] “Heterocycloalkyl” refers to a saturated or partially unsaturated ring that comprises two to twenty carbon atoms and at least one heteroatom. In certain embodiments, the heteroatoms are independently selected from N, O, Si, P, B, and S atoms. In certain embodiments, the heteroatoms are independently selected from N, O, and S atoms. The heterocycloalkyl may be selected from monocyclic or bicyclic, fused (when fused with an aryl or a heteroaryl ring, the heterocycloalkyl is bonded through a non-aromatic ring atom) or bridged ring systems. The heteroatoms in the heterocycloalkyl are optionally oxidized. One or more nitrogen atoms, if present, are optionally quaternized. The heterocycloalkyl is partially or fully saturated. The heterocycloalkyl is attached to the rest of the molecule through any atom of the heterocycloalkyl, valence permitting, such as any carbon or nitrogen atoms of the heterocycloalkyl. In certain embodiments, the heterocycloalkyl comprises from two to twenty carbon atoms (C2-C20 heterocycloalkyl), or two to ten carbon atoms (C2-C10 heterocycloalkyl), or two to eight carbon atoms (C2-C8 heterocycloalkyl), or two to six carbon atoms (C2-C6 heterocycloalkyl). In some embodiments, the heterocycloalkyl is a 3- to 6-membered heterocycloalkyl. In some embodiments, the heterocycloalkyl is a 3- to 8-membered heterocycloalkyl. In some embodiments, the heterocycloalkyl is a 5- to 6-membered heterocycloalkyl. In some embodiments, the heterocycloalkyl is a 5-membered heterocycloalkyl. In some embodiments, the heterocycloalkyl is a 6-membered heterocycloalkyl. Examples of heterocycloalkyl include, but are not limited to, azetidinyl, aziridyl, dioxolanyl, thienyl[1,3]dithianyl, decahydroisoquinolyl, imidazolinyl, imidazolidinyl, isothiazolidinyl, isoxazolidinyl, morpholinyl, octahydroindolyl, octahydroisoindolyl, 2-oxopiperazinyl, 2-oxopiperidinyl, 2-oxopyrrolidinyl, oxazolidinyl, piperidinyl, piperazinyl, 4-piperidonyl, pyrrolidinyl, pyrazolidinyl, quinuclidinyl, thiazolidinyl, tetrahydrofuryl, trithianyl, tetrahydropyranyl, thiomorpholinyl, thiamorpholinyl, 1-oxo-thiomorpholinyl, and
1,1-dioxo-thiomorpholinyl. In some embodiments, the heterocycloalkyl is optionally substituted with oxo, halogen, amino, nitrile, nitro, hydroxyl, alkyl, haloalkyl, alkoxy, aryl, aralkyl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like. In some embodiments, the heterocycloalkyl is optionally substituted with oxo, halogen, -CN, -Me, -Et, -CF3, -OH, -OMe, -NH2, -NO2, or cyclopropyl. In some embodiments, the heterocycloalkyl is optionally substituted with oxo, halogen, -CN, -Me, -Et, - CF3, -OH, -OMe, or cyclopropyl. In some embodiments, the heterocycloalkyl is optionally substituted with halogen.
[0036] “Heterocycloalkylalkyl” refers to a radical of the formula -Rh-heterocycloalkyl where Rh is an alkylene chain as defined above. If the heterocycloalkyl is a nitrogen-containing heterocycloalkyl, the heterocycloalkyl is optionally attached to the alkyl radical at the nitrogen atom. The alkylene chain of the heterocycloalkylalkyl radical is optionally substituted as defined above for an alkylene chain. The heterocycloalkyl part of the heterocycloalkylalkyl radical is optionally substituted as defined above for a heterocycloalkyl group.
[0037] “Heteroaryl” refers to a 5- to 14-membered ring system comprising hydrogen atoms, one to thirteen carbon atoms, one to six heteroatoms selected from the group consisting of nitrogen, oxygen, phosphorous and sulfur, and at least one aromatic ring. In some embodiments, the heteroaryl is a 5- or 6-membered heteroaryl. In some embodiments, the heteroaryl is a 5-membered heteroaryl. In some embodiments, the heteroaryl is a 6-membered heteroaryl. In some embodiments, the heteroaryl is a monocyclic, bicyclic, tricyclic or tetracyclic ring system, which may include fused ring systems (when fused with a cycloalkyl or heterocycloalkyl ring, the heteroaryl is bonded through an aromatic ring atom); and the nitrogen, carbon or sulfur atoms in the heteroaryl may be optionally oxidized; the nitrogen atom may be optionally quaternized. In some embodiments, the heteroaryl is a 5- to 10- membered heteroaryl. In some embodiments, the heteroaryl is a 10-membered heteroaryl. Examples include, but are not limited to, azepinyl, acridinyl, benzimidazolyl, benzothiazolyl, benzindolyl, benzodioxolyl, benzofuranyl, benzooxazolyl, benzothiazolyl, benzothiadiazolyl,
benzo[b][1,4]dioxepinyl, 1,4-benzodioxanyl, benzonaphthofuranyl, benzoxazolyl, benzodioxolyl, benzodioxinyl, benzopyranyl, benzopyranonyl, benzofuranyl, benzofuranonyl, benzothienyl (benzothiophenyl), benzotriazolyl, benzo[4,6]imidazo[1,2-a]pyridinyl, carbazolyl, cinnolinyl, dibenzofuranyl, dibenzothiophenyl, furanyl, furanonyl, isothiazolyl, imidazolyl, indazolyl, indolyl, indazolyl, isoindolyl, indolinyl, isoindolinyl, isoquinolyl, indolizinyl, isoxazolyl, naphthyridinyl, oxadiazolyl, 2-oxoazepinyl, oxazolyl, oxiranyl, 1-oxidopyridinyl, 1-oxidopyrimidinyl, 1- oxidopyrazinyl, 1-oxidopyridazinyl, 1-phenyl-1H-pyrrolyl, phenazinyl, phenothiazinyl, phenoxazinyl, phthalazinyl, pteridinyl, purinyl, pyrrolyl, pyrazolyl, pyridinyl, pyrazinyl, pyrimidinyl, pyridazinyl, quinazolinyl, quinoxalinyl, quinolinyl, quinuclidinyl, isoquinolinyl, tetrahydroquinolinyl, thiazolyl, thiadiazolyl, triazolyl, tetrazolyl, triazinyl, and thiophenyl (i.e., thienyl). In some embodiments, the heteroaryl is optionally substituted with halogen, amino, nitrile, nitro, hydroxyl, alkyl, haloalkyl, alkoxy, aryl, aralkyl, cycloalkyl, heterocycloalkyl, heteroaryl, and the like. In some embodiments, the heteroaryl is optionally substituted with halogen, -CN, -Me, -Et, -CF3, -OH, -OMe, -NH2, -NO2, or cyclopropyl. In some embodiments, the heteroaryl is optionally substituted with halogen, -CN, -Me, - Et, -CF3, -OH, -OMe, or cyclopropyl. In some embodiments, the heteroaryl is optionally substituted with halogen.
[0038] The term“optional” or“optionally” means that the subsequently described event or circumstance may or may not occur, and that the description includes instances where said event or circumstance occurs and instances in which it does not. For example,“optionally substituted alkyl” means either“alkyl” or“substituted alkyl” as defined above. Further, an optionally substituted group may be un-substituted (e.g., -CH2CH3), fully substituted (e.g., -CF2CF3), mono-substituted (e.g., - CH2CH2F) or substituted at a level anywhere in-between fully substituted and mono-substituted (e.g., -CH2CHF2, -CH2CF3, -CF2CH3, -CFHCHF2, etc). It will be understood by those skilled in the art with respect to any group containing one or more substituents that such groups are not intended to introduce any substitution or substitution patterns (e.g., substituted alkyl includes optionally substituted cycloalkyl groups, which in turn are defined as including optionally substituted alkyl groups, potentially ad infinitum) that are sterically impractical and/or synthetically non-feasible. Thus, any substituents described should generally be understood as having a maximum molecular weight of about 1,000 daltons, and more typically, up to about 500 daltons.
[0039] An“effective amount” or“therapeutically effective amount” refers to an amount of a compound administered to a mammalian subject, either as a single dose or as part of a series of doses, which is effective to produce a desired therapeutic effect.
[0040] “Treatment” of an individual (e.g. a mammal, such as a human) or a cell is any type of intervention used in an attempt to alter the natural course of the individual or cell. In some embodiments, treatment includes administration of a pharmaceutical composition, subsequent to the initiation of a pathologic event or contact with an etiologic agent and includes stabilization of the condition (e.g., condition does not worsen) or alleviation of the condition. In some embodiments, treatment also includes prophylactic treatment (e.g., administration of a composition described herein when an individual is suspected to be suffering from a bacterial infection). Compounds
[0041] Described herein are compounds that modulate the activity of beta-lactamase. In some embodiments, the compounds described herein inhibit beta-lactamase. In some embodiments, the compounds described herein inhibit penicillin binding protein. In certain embodiments, the compounds described herein are useful in the treatment of bacterial infections. In some embodiments, the bacterial infection is an upper or lower respiratory tract infection, a urinary tract infection, an intra-abdominal infection, or a skin infection. In some embodiments, the bacterial infection is uncomplicated or complicated urinary tract infections, uncomplicated or complicated gonorrhea, upper or lower respiratory tract infections, skin or skin structure infections, intra-abdominal infections, central nervous system infections, blood stream infections, or systemic infections.
[0042] Also disclosed herein is a compound of Formula (Ia) or (Ib), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
Figure imgf000019_0001
Formula (Ib),
wherein:
L1 is -(CR1R2)n-;
L2 is -(CR1R2)m-;
L2’ is absent, -C(=O)NH-, -NHC(=O)-, or -CH2NH-;
L3 is -C(=O)-, -S(=O)-, or -S(=O)2-; A1 is hydrogen, , or Y;
Ring A is cycloalkyl, heterocycloalkyl, aryl, or heteroaryl;
each R1 and R2 is independently hydrogen, halogen, optionally substituted alkyl, -OH, -OR34, - SR35, -NR32R33, -NR32C(=O)R34, -C(=O)NR32R33, -NR32S(=O)2R34, ­C(=O)OH, ­C(=O)OR34, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or R1 and R2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl;
R8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R20 and R21 is independently hydrogen, halogen, or optionally substituted alkyl;
R22 and R23 are independently hydrogen or optionally substituted alkyl; or
R22 and R23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R30, R31, R50, and R51 is independently hydrogen, halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR24, -SR25, -NR22R23, - NR22C(=O)R24, -C(=O)NR22R23, -NR22S(=O)2R24, ­C(=O)OH, or ­C(=O)OR24; or
R30 and R31, or R50 and R51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
two R30 or two R50 on adjacent carbons are taken together to form an alkenyl; or
two R30 and two R31, or two R50 and two R51 on adjacent carbons are taken together to form an alkynyl;
R32, R33, R52, R53, R82, and R83 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene-glycol)-ethyl, optionally substituted saccharide, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24; or
R32 and R33, or R52 and R53, or R82 and R83 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R34, R54, and R84 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R35 and R55 are independently hydrogen, optionally substituted alkyl, optionally substituted
cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R36 and R56 are independently hydrogen, -OH, -OR24, -CN, -NO2, -NR22R23, or optionally
substituted alkyl;
Z is hydrogen, R61, -(R60)qOR61, -(R60)qO(R60)qOR61, -R60OC(=O)R61, -R60OC(=O)OR61, - R60OC(=O)NHR61, -R60OC(=O)N(R61)2, optionally substituted alkyloxyalkyl, optionally substituted acyloxyalkyl, optionally substituted alkyloxycarbonyloxyalkyl, optionally substituted cycloalkyloxycarbonyloxyalkyl, optionally substituted aryloxycarbonyloxyalkyl, or optionally substituted alkyl-[1,3]dioxol-2-one;
each R60 is independently -CH2-, -CH(CH3)-, -C(CH3)2-, or optionally substituted 1,1’- cyclopropylene;
each R61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
two R61 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R74 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, -OH, -OR84, -NR82R83, -C(=O)OH, or -C(=O)OR84;
Ra, Rb, and Rc are independently hydrogen, halogen, cyano, optionally substituted alkyl,
optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, - S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, - (CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53,
­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, - (CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or - (CR50R51)vheteroaryl;
Rd is hydrogen, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, -(CR20R21)vC(=O)OH, -C(=O)R24,
optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
each Re is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
substituted cycloalkyl;
RX is optionally substituted alkyl or optionally substituted cycloalkyl;
X1 and X2 are independently -OH, -ORX, or F; or X1 and X2 are taken together with the boron atom to which they are attached to form a cyclic boronate ester;
each Y is independently halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -heteroaryl-NR32R33, -heterocycloalkyl-NR32R33, -heteroaryl- N(R32)C(=NR32)NR32R33, -heterocycloalkyl-N(R32)C(=NR32)NR32R33, -OH, -OR34, - O(CR30R31)wOH, -O(CR30R31)wOR34, -O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, - O(CR30R31)wNR32C(=O)OR34, -O(CR30R31)wNR32C(=O)NR32R33, - O(CR30R31)wC(=O)NR32R33, -O(CR30R31)wNR32S(=O)0,1,2R34, - O(CR30R31)wNR32S(=O)0,1,2NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -OC(=O)R34, -OC(=O)(CR30R31)vNR32R33, -OC(=O)NR32R33, -OC(=O)OR34, -OC(=O)NR32(CR30R31)wNR32R33, -O-heteroaryl, -O-heterocycloalkyl, - O(CR30R31)vheteroaryl, -O(CR30R31)vheterocycloalkyl, -O(CR30R31)wNR32-heteroaryl, - O(CR30R31)wNR32-heterocycloalkyl, -O(CR30R31)wO-heterocycloalkyl, -NR32R33, - NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -NR32(CR30R31)wOR34, -NR32C(=O)R34, - NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, -NR32C(=O)NR32R33, - NR32C(=O)NR32(CR30R31)wNR32R33, -NR32(CR30R31)wS(=O)0,1,2R34, - NR32(CR30R31)wS(=O)0,1,2NR32R33, -NR32(CR30R31)wNR32R33S(=O)0,1,2R34, - NR32(CR30R31)wNR32S(=O)0,1,2NR32R33, -NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, - NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, - NR32(CR30R31)vCO2H, -NR32(CR30R31)vCO2R34, -NR32(CR30R31)vC(=O)NR32R33, -N(R32)- heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, -NR32(CR30R31)vheteroaryl, - NR32(CR30R31)vheterocycloalkyl, -NR32(CR30R31)wNR32-heteroaryl, -NR32(CR30R31)wNR32- heterocycloalkyl, -CN, -(CR30R31)vCN, -(CR30R31)vNR32R33, -(CR30R31)vOH, -(CR30R31)vOR34, -(CR30R31)vOC(=O)R34, -(CR30R31)vOC(=O)NR32R33, -(CR30R31)vO(CR30R31)wOR34, - (CR30R31)vO(CR30R31)wOH, -(CR30R31)vO(CR30R31)wNR32R33, -(CR30R31)vNR32(CR30R31)wOH, -(CR30R31)vNR32(CR30R31)wOR34, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, - (CR30R31)vC(=O)OR34, -(CR30R31)vC(=O)NR32(CR30R31)wNR32R33, - (CR30R31)vC(=O)NR32(CR30R31)wOR34, -(CR30R31)vN(R32)C(=O)R34, - (CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, -(CR30R31)vN(R32)C(=O) (CR30R31)vNR32R33, -(CR30R31)vN(R32)S(=O)0,1,2R34, -(CR30R31)vN(R32)S(=O)0,1,2NR32R33 - (CR30R31)vS(=O)0,1,2NR32R33, -(CR30R31)vNR32(CR30R31)wNR32R33, - (CR30R31)vN(R32)CH(=NR36), -(CR30R31)vN(R32)C(=NR36)R34, -(CR30R31)vC(=NR36)NR32R33, GR Doc et No.41223-728.601
-(CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -(CR30R31)vheterocycloalkyl-NR32R33, -(CR30R31)vheteroaryl- N(R32)C(=NR36)NR32R33, -(CR30R31)vheterocycloalkyl-N(R32)C(=NR36)NR32R33, - (CR30R31)vheteroaryl, -(CR30R31)vheterocycloalkyl, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, -C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, -S(=O)1,2R34, -SR35, - S(=O)0,1,2(CR30R31)wNR32R33, -S(=O)0,1,2(CR30R31)wOH, -S(=O)0,1,2(CR30R31)wOR34, - S(=O)0,1,2NR32R33, -S(=O)0,1,2NR32(CR30R31)wNR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)R34, -S(=O)0,1,2(CR30R31)vC(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, -Si(R34)3, -NR32R33R34+Q-, - (CR30R31)vNR32R33R34+Q-, -NR32(CR30R31)wNR32R33R34+Q-, - NR32R34+(CR30R31)wNR32R33R34+Q- 2, -(CR30R31)v(T)+Q-, or -O(CR30R31)wNR32R33R34+Q-; or two Ys are taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl;
Q is a pharmaceutically acceptable counterion;
n is 0-3;
m is 0-3;
p is 0-3;
each q is independently 2-6;
each v is independently 1-5; and
each w is independently 2-5.
[0043] In some embodiments of a compound of Formula (Ia) or (Ib), L3 is -C(=O)- or -S(=O)2-. In some embodiments of a compound of Formula (Ia) or (Ib), L3 is -C(=O)-. In some embodiments of a compound of Formula (Ia) or (Ib), L3 is -S(=O)2-. In some embodiments of a compound of Formula (Ia) or (Ib), L3 is -S(=O)-.
[0044] In some embodiments of a compound of Formula (Ia) or (Ib), L2’ is absent. In some embodiments of a compound of Formula (Ia) or (Ib), L2’ is -C(=O)NH-, or -NHC(=O)-. In some embodiments of a compound of Formula (Ia) or (Ib), L2’ is -CH2NH-.
[0045] In some embodiments of a compound of Formula (Ia) or (Ib), R8 is hydrogen or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R8 is hydrogen.
[0046] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is optionally substituted alkyl, optionally substituted heterocycloalkyl, optionally substituted heteroaryl, optionally substituted heteroaralkyl, -NR82R83, or -C(=O)OR84. In some embodiments of a compound of Formula (Ia) or (Ib), R74 is optionally substituted heteroaryl. In some embodiments of a compound of Formula (Ia) or (Ib), the heteroaryl is thiazole, pyridine, or pyrimidine. In some embodiments of a compound of Formula (Ia) or (Ib), R74 is optionally substituted heterocycloalkyl. In some embodiments of a compound of Formula (Ia) or (Ib), the heterocycloalkyl is piperazine, morpholine, or imidazolidine. In some embodiments of a compound of Formula (Ia) or (Ib), R74 is optionally substituted piperazine.
[0047] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is -NR82R83.
[0048] In some embodiments of a compound of Formula (Ia) or (Ib), R82 and R83 are independently hydrogen, optionally substituted alkyl, or optionally substituted heteroaryl. In some embodiments of a compound of Formula (Ia) or (Ib), R82 and R83 are independently hydrogen or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R82 and R83 are both optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R82 is hydrogen and and R83optionally substituted alkyl or optionally substituted heteroaryl.
[0049] In some embodiments of a compound of Formula (Ia) or (Ib), R82 and R83 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl. In some embodiments of a compound of Formula (Ia) or (Ib), the heterocycloalkyl is piperazine, morpholine, or imidazolidine. In some embodiments of a compound of Formula (Ia) or (Ib), R74 is optionally substituted piperazine.
[0050] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is
Figure imgf000024_0001
wherein:
each W1 and W2 is independently -C(=O)- or -C(R91)2-;
R90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, - S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24;
each R91 is independently hydrogen, halogen, -OH, -CN, NH2, NO2, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
or one R90 and R91 are taken together with the atoms to which they are attached to form an
optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
u1 is 1-3; and
u2 is 1-3.
[0051] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is
wherein:
Figure imgf000024_0002
each W1 and W2 is independently -C(=O)- or -C(R91)2-; R90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, - S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24;
each R91 is independently hydrogen, halogen, -OH, -CN, NH2, NO2, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; u1 is 1-3; and
u2 is 1-3.
[0052] In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u2 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u2 is 2. In some embodiments of a compound of Formula (Ia) or (Ib), u2 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 1 and u2 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2 and u2 is 1. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2 and u2 is 2. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 1 and u2 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2 and u2 is 3. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 3 and u2 is 3.
[0053] In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2; each W1 is -C(R91)2-; u2 is 2; and each W2 is -C(=O)-. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2; each W1 is -C(R91)2-; u2 is 1; and W2 is -C(=O)-. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2; each W1 is -C(R91)2-; u2 is 2; and one W2 is -C(R91)2- and one W2 is -C(=O)-. In some embodiments of a compound of Formula (Ia) or (Ib), u1 is 2; one W1 is -C(R91)2- and one W1 is -C(=O)-; u2 is 2; and one W2 is -C(R91)2- and one W2 is -C(=O)-.
[0054] In some embodiments of a compound of Formula (Ia) or (Ib), R90 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted aralkyl, -S(=O)2R24, or - C(=O)R24. In some embodiments of a compound of Formula (Ia) or (Ib), R90 is optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R90 is -H, -OH,
Figure imgf000025_0002
, ,
Figure imgf000025_0001
Figure imgf000026_0001
. In some embodiments of a compound of Formula (Ia) or (Ib), R90 is ethyl.
[0055] In some embodiments of a compound of Formula (Ia) or (Ib), each R91 is independently hydrogen, halogen, or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), each R91 is hydrogen.
[0056] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is selected from:
Figure imgf000026_0002
R90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, - S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24;
each R91 is independently hydrogen, halogen, -OH, -CN, NH2, NO2, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; and t is 1-4.
[0057] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is:
Figure imgf000026_0003
.
[0058] In some embodiments of a compound of Formula (Ia) or (Ib), t is 0. In some embodiments of a compound of Formula (Ia) or (Ib), t is 1. In some embodiments of a compound of Formula (Ia) or (Ib), t is 2. In some embodiments of a compound of Formula (Ia) or (Ib), t is 3. In some embodiments of a compound of Formula (Ia) or (Ib), t is 4.
[0059] In some embodiments of a compound of Formula (Ia) or (Ib), R90 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted aralkyl, or -S(=O)2R24. In some embodiments of a compound of Formula (Ia) or (Ib), R90 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, or optionally substituted aralkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R90 is optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), R90 is alkyl optionally substituted with halogen, cycloalkyl, -NH2, - OH, or -OMe. In some embodiments of a compound of Formula (Ia) or (Ib), R90 is methyl, ethyl, propyl, or butyl. In some embodiments of a compound of Formula (Ia) or (Ib), R90 is ethyl. [0060] In some embodiments of a compound of Formula (Ia) or (Ib), R90 is -H, -OH,
Figure imgf000027_0001
, ,
Figure imgf000027_0002
[0061] In some embodiments of a compound of Formula (Ia) or (Ib), each R91 is independently hydrogen, halogen, or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia) or (Ib), each R91 is independently hydrogen or halogen. In some embodiments of a compound of Formula (Ia) or (Ib), each R91 is hydrogen.
[0062] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is:
Figure imgf000027_0003
[0063] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is:
Figure imgf000028_0001
[0064] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is:
,
Figure imgf000029_0001
[0065] In some embodiments of a compound of Formula (Ia) or (Ib), R74 is
Figure imgf000029_0002
[0066] Also disclosed herein is a compound of Formula (IIa) or (IIb), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
Figure imgf000029_0003
wherein:
G is -NR8-, -C(R10)2-, or -C(R10)2NR8-;
L1 is -(CR1R2)n-;
L2 is -(CR1R2)m-; A1 is hydrogen,
Figure imgf000029_0004
Ring A is cycloalkyl, heterocycloalkyl, aryl, or heteroaryl; R1, R2, and R9 are independently hydrogen, halogen, optionally substituted alkyl, -OH, -OR34, - SR35, -NR32R33, -NR32C(=O)R34, -C(=O)NR32R33, -NR32S(=O)2R34, ­C(=O)OH, ­C(=O)OR34, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R1 and R2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
R8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R8 and R9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl;
each R10 is independently hydrogen, halogen, or optionally substituted alkyl;
each R20 and R21 is independently hydrogen, halogen, or optionally substituted alkyl;
R22 and R23 are independently hydrogen or optionally substituted alkyl; or
R22 and R23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R30, R31, R50, and R51 is independently hydrogen, halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR24, -SR25, -NR22R23, - NR22C(=O)R24, -C(=O)NR22R23, -NR22S(=O)2R24, ­C(=O)OH, or ­C(=O)OR24; or
R30 and R31, or R50 and R51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
two R30 or two R50 on adjacent carbons are taken together to form an alkenyl; or
two R30 and two R31, or two R50 and two R51 on adjacent carbons are taken together to form an alkynyl;
R32, R33, R52, and R53 are independently hydrogen, optionally substituted alkyl, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene-glycol)-ethyl, optionally substituted saccharide, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24; or
and R33, or R52 and R53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R34, and R54 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; R35 and R55 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R36 and R56 are independently hydrogen, -OH, -OR24, -CN, -NO2, -NR22R23, or optionally
substituted alkyl;
each R60 is independently -CH2-, -CH(CH3)-, -C(CH3)2-, or optionally substituted 1,1’- cyclopropylene;
each R61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
two R61 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
each W1 and W2 is independently -C(=O)- or -C(R91)2-;
R90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, - S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24;
each R91 is independently hydrogen, halogen, -OH, -CN, NH2, NO2, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
or one R90 and R91 are taken together with the atoms to which they are attached to form an
optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
Ra, Rb, and Rc are independently hydrogen, halogen, cyano, optionally substituted alkyl,
optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, - S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, - (CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53,
­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, - (CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or - (CR50R51)vheteroaryl; Rd is hydrogen, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, -(CR20R21)vC(=O)OH, -C(=O)R24, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
each Re is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
substituted cycloalkyl;
RX is optionally substituted alkyl or optionally substituted cycloalkyl;
X1 and X2 are independently -OH, -ORX, or F; or
X1 and X2 are taken together with the boron atom to which there are attached to form a cyclic boronate ester;
each Y is independently halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -heteroaryl-NR32R33, -heterocycloalkyl-NR32R33, -heteroaryl- N(R32)C(=NR32)NR32R33, -heterocycloalkyl-N(R32)C(=NR32)NR32R33, -OH, -OR34, - O(CR30R31)wOH, -O(CR30R31)wOR34, -O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, - O(CR30R31)wNR32C(=O)OR34, -O(CR30R31)wNR32C(=O)NR32R33, - O(CR30R31)wC(=O)NR32R33, -O(CR30R31)wNR32S(=O)0,1,2R34, - O(CR30R31)wNR32S(=O)0,1,2NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -OC(=O)R34, -OC(=O)(CR30R31)vNR32R33, -OC(=O)NR32R33, -OC(=O)OR34, -OC(=O)NR32(CR30R31)wNR32R33, -O-heteroaryl, -O-heterocycloalkyl, - O(CR30R31)vheteroaryl, -O(CR30R31)vheterocycloalkyl, -O(CR30R31)wNR32-heteroaryl, - O(CR30R31)wNR32-heterocycloalkyl, -O(CR30R31)wO-heterocycloalkyl, -NR32R33, - NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -NR32(CR30R31)wOR34, -NR32C(=O)R34, - NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, -NR32C(=O)NR32R33, - NR32C(=O)NR32(CR30R31)wNR32R33, -NR32(CR30R31)wS(=O)0,1,2R34, - NR32(CR30R31)wS(=O)0,1,2NR32R33, -NR32(CR30R31)wNR32R33S(=O)0,1,2R34, - NR32(CR30R31)wNR32S(=O)0,1,2NR32R33, -NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, - NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, - NR32(CR30R31)vCO2H, -NR32(CR30R31)vCO2R34, -NR32(CR30R31)vC(=O)NR32R33, -N(R32)- heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, -NR32(CR30R31)vheteroaryl, - NR32(CR30R31)vheterocycloalkyl, -NR32(CR30R31)wNR32-heteroaryl, -NR32(CR30R31)wNR32- heterocycloalkyl, -CN, -(CR30R31)vCN, -(CR30R31)vNR32R33, -(CR30R31)vOH, -(CR30R31)vOR34, -(CR30R31)vOC(=O)R34, -(CR30R31)vOC(=O)NR32R33, -(CR30R31)vO(CR30R31)wOR34, - GR Doc et No.41223-728.601
(CR30R31)vO(CR30R31)wOH, -(CR30R31)vO(CR30R31)wNR32R33, -(CR30R31)vNR32(CR30R31)wOH, -(CR30R31)vNR32(CR30R31)wOR34, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, - (CR30R31)vC(=O)OR34, -(CR30R31)vC(=O)NR32(CR30R31)wNR32R33, - (CR30R31)vC(=O)NR32(CR30R31)wOR34, -(CR30R31)vN(R32)C(=O)R34, - (CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, - (CR30R31)vN(R32)C(=O)(CR30R31)vNR32R33, -(CR30R31)vN(R32)S(=O)0,1,2R34, - (CR30R31)vN(R32)S(=O)0,1,2NR32R33 -(CR30R31)vS(=O)0,1,2NR32R33, - (CR30R31)vNR32(CR30R31)wNR32R33, -(CR30R31)vN(R32)CH(=NR36), - (CR30R31)vN(R32)C(=NR36)R34, -(CR30R31)vC(=NR36)NR32R33, - (CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -(CR30R31)vheterocycloalkyl-NR32R33, -(CR30R31)vheteroaryl- N(R32)C(=NR36)NR32R33, -(CR30R31)vheterocycloalkyl-N(R32)C(=NR36)NR32R33, - (CR30R31)vheteroaryl, -(CR30R31)vheterocycloalkyl, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, -C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, -S(=O) 35
1,2R34, -SR , - S(=O)0,1,2(CR30R31)wNR32R33, -S(=O)0,1,2(CR30R31)wOH, -S(=O)0,1,2(CR30R31)wOR34, - S(=O)0,1,2NR32R33, -S(=O)0,1,2NR32(CR30R31)wNR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)R34, -S(=O)0,1,2(CR30R31)vC(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, -Si(R34)3, -NR32R33R34+Q-, - (CR30R31)vNR32R33R34+Q-, -NR32(CR30R31)wNR32R33R34+Q-, - NR32R34+(CR30R31)wNR32R33R34+Q- 2, -(CR30R31)v(T)+Q-, or -O(CR30R31)wNR32R33R34+Q-; or two Ys are taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
Z is hydrogen, R61, -(R60)qOR61, -(R60)qO(R60)qOR61, -R60OC(=O)R61, -R60OC(=O)OR61, - R60OC(=O)NHR61, -R60OC(=O)N(R61)2, optionally substituted alkyloxyalkyl, optionally substituted acyloxyalkyl, optionally substituted alkyloxycarbonyloxyalkyl, optionally substituted cycloalkyloxycarbonyloxyalkyl, optionally substituted aryloxycarbonyloxyalkyl, or optionally substituted alkyl-[1,3]dioxol-2-one;
T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl;
Q is a pharmaceutically acceptable counterion;
n is 0-3;
m is 0-3;
p is 0-3;
each q is independently 2-6;
u1 is 1-3;
u2 is 1-3;
each v is independently 1-5; and each w is independently 2-5.
[0067] Also disclosed herein is a compound of Formula (IIa) or (IIb), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
wherein:
Figure imgf000034_0002
G is -NR8-, -C(R10)2-, or -C(R10)2NR8-;
L1 is -(CR1R2)n-;
L2 is -(CR1R2)m-; A1 is hydrogen,
Figure imgf000034_0001
Ring A is cycloalkyl, heterocycloalkyl, aryl, or heteroaryl;
R1, R2, and R9 are independently hydrogen, halogen, optionally substituted alkyl, -OH, -OR34, - SR35, -NR32R33, -NR32C(=O)R34, -C(=O)NR32R33, -NR32S(=O)2R34, ­C(=O)OH, ­C(=O)OR34, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R1 and R2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
R8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R8 and R9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl;
each R10 is independently hydrogen, halogen, or optionally substituted alkyl;
each R20 and R21 is independently hydrogen, halogen, or optionally substituted alkyl;
R22 and R23 are independently hydrogen or optionally substituted alkyl; or R22 and R23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R30, R31, R50, and R51 is independently hydrogen, halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR24, -SR25, -NR22R23, - NR22C(=O)R24, -C(=O)NR22R23, -NR22S(=O)2R24, ­C(=O)OH, or ­C(=O)OR24; or
R30 and R31, or R50 and R51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
two R30 or two R50 on adjacent carbons are taken together to form an alkenyl; or
two R30 and two R31, or two R50 and two R51 on adjacent carbons are taken together to form an alkynyl;
R32, R33, R52, and R53 are independently hydrogen, optionally substituted alkyl, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene-glycol)-ethyl, optionally substituted saccharide, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24; or
and R33, or R52 and R53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R34, and R54 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R35 and R55 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R36 and R56 are independently hydrogen, -OH, -OR24, -CN, -NO2, -NR22R23, or optionally
substituted alkyl;
each R60 is independently -CH2-, -CH(CH3)-, -C(CH3)2-, or optionally substituted 1,1’- cyclopropylene;
each R61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
two R61 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
each W1 and W2 is independently -C(=O)- or -C(R91)2-; R90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, - S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24;
each R91 is independently hydrogen, halogen, -OH, -CN, NH2, NO2, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
Ra, Rb, and Rc are independently hydrogen, halogen, cyano, optionally substituted alkyl,
optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, - S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51) 50
vC(=O)OH, -S(CR R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51) 0
vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR5 R51)vOR54, - (CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53,
­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, - (CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or - (CR50R51)vheteroaryl;
Rd is hydrogen, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, -(CR20R21)vC(=O)OH, -C(=O)R24,
optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
each Re is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
substituted cycloalkyl;
RX is optionally substituted alkyl or optionally substituted cycloalkyl;
X1 and X2 are independently -OH, -ORX, or F; or
X1 and X2 are taken together with the boron atom to which there are attached to form a cyclic boronate ester;
each Y is independently halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -heteroaryl-NR32R33, -heterocycloalkyl-NR32R33, -heteroaryl- N(R32)C(=NR32)NR32R33, -heterocycloalkyl-N(R32)C(=NR32)NR32R33, -OH, -OR34, - O(CR30R31)wOH, -O(CR30R31)wOR34, -O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, - GR Doc et No.41223-728.601
O(CR30R31)wNR32C(=O)OR34, -O(CR30R31)wNR32C(=O)NR32R33, - O(CR30R31)wC(=O)NR32R33, -O(CR30R31)wNR32S(=O)0,1,2R34, - O(CR30R31)wNR32S(=O)0,1,2NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -OC(=O)R34, -OC(=O)(CR30R31) 2 vNR32R33, -OC(=O)NR3 R33, -OC(=O)OR34, -OC(=O)NR32(CR30R31)wNR32R33, -O-heteroaryl, -O-heterocycloalkyl, - O(CR30R31)vheteroaryl, -O(CR30R31)vheterocycloalkyl, -O(CR30R31)wNR32-heteroaryl, - O(CR30R31)wNR32-heterocycloalkyl, -O(CR30R31)wO-heterocycloalkyl, -NR32R33, - NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -NR32(CR30R31)wOR34, -NR32C(=O)R34, - NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, -NR32C(=O)NR32R33, - NR32C(=O)NR32(CR30R31)wNR32R33, -NR32(CR30R31)wS(=O)0,1,2R34, - NR32(CR30R31)wS(=O)0,1,2NR32R33, -NR32(CR30R31)wNR32R33S(=O)0,1,2R34, - NR32(CR30R31)wNR32S(=O)0,1,2NR32R33, -NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, - NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, - NR32(CR30R31) 0
vCO2H, -NR32(CR30R31)vCO2R34, -NR32(CR3 R31)vC(=O)NR32R33, -N(R32)- heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, -NR32(CR30R31)vheteroaryl, - NR32(CR30R31)vheterocycloalkyl, -NR32(CR30R31)wNR32-heteroaryl, -NR32(CR30R31)wNR32- heterocycloalkyl, -CN, -(CR30R31) 1
vCN, -(CR30R31)vNR32R33, -(CR30R3 ) 30
vOH, -(CR R31)vOR34, -(CR30R31)vOC(=O)R34, -(CR30R31)vOC(=O)NR32R33, -(CR30R31)vO(CR30R31)wOR34, - (CR30R31) 0
vO(CR30R31)wOH, -(CR3 R31)vO(CR30R31)wNR32R33, -(CR30R31)vNR32(CR30R31)wOH, -(CR30R31)vNR32(CR30R31)wOR34, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, - (CR30R31)vC(=O)OR34, -(CR30R31)vC(=O)NR32(CR30R31)wNR32R33, - (CR30R31)vC(=O)NR32(CR30R31)wOR34, -(CR30R31)vN(R32)C(=O)R34, - (CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, - (CR30R31)vN(R32)C(=O)(CR30R31)vNR32R33, -(CR30R31)vN(R32)S(=O)0,1,2R34, - (CR30R31)vN(R32)S(=O)0,1,2NR32R33 -(CR30R31)vS(=O)0,1,2NR32R33, - (CR30R31)vNR32(CR30R31)wNR32R33, -(CR30R31)vN(R32)CH(=NR36), - (CR30R31)vN(R32)C(=NR36)R34, -(CR30R31)vC(=NR36)NR32R33, - (CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -(CR30R31)vheterocycloalkyl-NR32R33, -(CR30R31)vheteroaryl- N(R32)C(=NR36)NR32R33, -(CR30R31)vheterocycloalkyl-N(R32)C(=NR36)NR32R33, - (CR30R31)vheteroaryl, -(CR30R31)vheterocycloalkyl, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, -C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, -S(=O)1,2R34, -SR35, - GR Doc et No.41223-728.601
S(=O)0,1,2(CR30R31)wNR32R33, -S(=O)0,1,2(CR30R31)wOH, -S(=O)0,1,2(CR30R31)wOR34, - S(=O)0,1,2NR32R33, -S(=O)0,1,2NR32(CR30R31)wNR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)R34, -S(=O)0,1,2(CR30R31)vC(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, -Si(R34)3, -NR32R33R34+Q-, - (CR30R31)vNR32R33R34+Q-, -NR32(CR30R31)wNR32R33R34+Q-, - NR32R34+(CR30R31)wNR32R33R34+Q- 2, -(CR30R31)v(T)+Q-, or -O(CR30R31)wNR32R33R34+Q-; or two Ys are taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
Z is hydrogen, R61, -(R60)qOR61, -(R60)qO(R60)qOR61, -R60OC(=O)R61, -R60OC(=O)OR61, - R60OC(=O)NHR61, -R60OC(=O)N(R61)2, optionally substituted alkyloxyalkyl, optionally substituted acyloxyalkyl, optionally substituted alkyloxycarbonyloxyalkyl, optionally substituted cycloalkyloxycarbonyloxyalkyl, optionally substituted aryloxycarbonyloxyalkyl, or optionally substituted alkyl-[1,3]dioxol-2-one;
T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl;
Q is a pharmaceutically acceptable counterion;
n is 0-3;
m is 0-3;
p is 0-3;
each q is independently 2-6;
u1 is 1-3;
u2 is 1-3;
each v is independently 1-5; and
each w is independently 2-5.
[0068] In some embodiments of a compound of Formula (IIa) or (IIb), G is -NR8- or -CH2NR8-. In some embodiments of a compound of Formula (IIa) or (IIb), G is -CH2-. In some embodiments of a compound of Formula (IIa) or (IIb), G is -NR8-. In some embodiments of a compound of Formula (IIa) or (IIb), G is -CH2NR8-. In some embodiments of a compound of Formula (IIa) or (IIb), R9 is hydrogen or optionally substituted alkyl. In some embodiments of a compound of Formula (IIa) or (IIb), R9 is optionally substituted alkyl. In some embodiments of a compound of Formula (IIa) or (IIb), R9 is methyl. In some embodiments of a compound of Formula (IIa) or (IIb), R9 is hydrogen. In some embodiments of a compound of Formula (IIa) or (IIb), and R9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl. In some embodiments of a compound of Formula (IIa) or (IIb), and R9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl selected from pyrrolidine or azetidine. In some embodiments of a compound of Formula (IIa) or (IIb), G is -NR8- and the heterocycloalkyl formed when R8 and R9 are taken together with the atoms to which they are attached is pyrrolidine. In some embodiments of a compound of Formula (IIa) or (IIb), G is -CH2NR8- and the heterocycloalkyl formed when R8 and R9 are taken together with the atoms to which they are attached is azetidine.
[0069] In some embodiments the compound of Formula (IIa) or (IIb) is of Formula (IIa-1) or (IIb- 1), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
Figure imgf000039_0001
[0070] In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 3. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 3. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u2 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u2 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u2 is 3. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 1 and u2 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2 and u2 is 1. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2 and u2 is 2. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 1 and u2 is 3. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2 and u2 is 3. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 3 and u2 is 3. [0071] In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2; each W1 is -C(R91)2-; u2 is 2; and each W2 is -C(=O)-. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2; each W1 is -C(R91)2-; u2 is 1; and W2 is -C(=O)-. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2; each W1 is - C(R91)2-; u2 is 2; and one W2 is -C(R91)2- and one W2 is -C(=O)-. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), u1 is 2; one W1 is -C(R91)2- and one W1 is - C(=O)-; u2 is 2; and one W2 is -C(R91)2- and one W2 is -C(=O)-. In some embodiments of a
compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1),
Figure imgf000040_0006
,
or
Figure imgf000040_0005
Figure imgf000040_0004
; wherein t is 1-4. In some embodiments of a compound of Formula (IIa), (IIa-1),
(IIb), or (IIb-1),
Figure imgf000040_0003
wherein t is 1-4. In some embodiments of a
compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1),
Figure imgf000040_0002
[0072] In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), R90 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted aralkyl, -S(=O)2R24, or -C(=O)R24. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), R90 is optionally substituted alkyl. In some embodiments of a compound of Formula
(IIa), (IIa-1), (IIb), or (IIb-1), R90 is -H, -OH,
Figure imgf000040_0001
Figure imgf000041_0006
In some embodiments of
Figure imgf000041_0005
a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), R90 is -H, -OH,
Figure imgf000041_0004
Figure imgf000041_0003
Figure imgf000041_0002
. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), R90 is ethyl.
[0073] In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), each R91 is independently hydrogen, halogen, or optionally substituted alkyl. In some embodiments of a compound of Formula (IIa), (IIa-1), (IIb), or (IIb-1), each R91 is hydrogen.
[0074] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is
Figure imgf000041_0001
[0075] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is cyclopropane, cyclobutane, cyclopentane, cyclohexane, cycloheptane, cyclooctane, cyclopentene, cyclohexene, cycloheptene, and cyclooctene, wherein the olefin functionality of the cyclopentene, cyclohexene, cycloheptene, and cyclooctene is not directly attached to an oxygen, sulfur, or nitrogen substituent. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is cyclopropane, cyclobutane, cyclopentane, or cyclohexane.
[0076] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is azetidine, aziridine, oxirane, oxetane, thietane, pyrrolidine, oxazolidine, isoxazolidine, thiazolidine, isothiazolidine, imidazolidine, pyrazolidine, 2,5-dihydro-1H-pyrrole, 3,4-dihydro-2H- pyrrole, 4,5-dihydrooxazole, 4,5-dihydroisoxazole, 4,5-dihydrothiazole, 4,5-dihydroisothiazole, 4,5- dihydro-1H-pyrazole, 4,5-dihydro-1H-imidazole, 2,5-dihydro-1H-pyrrole, piperidine, morpholine, thiomorpholine, tetrahydrothiopyran, tetrahydropyran, tetrahydrofuran, 1,4-oxathiane, piperazine, hexahydropyrimidine, hexahydropyridazine, 1,4,5,6-tetrahydropyrimidine, 1,3-oxazinane, 5,6- dihydro-4H-1,3-oxazine, 1,3-thiazinane, 5,6-dihydro-4H-1,3-thiazine, 1,4,5,6-tetrahydropyridazine, 1,2,3,6-tetrahydropyrazine, 1,2,3,6-tetrahydropyridine, 1,2,3,6-tetrahydropyridazine, azepane, 1,3- oxazepane, 1,4-oxazepane, 1,3-diazepane, 1,4-diazepane, 1,3-thiazepane, 1,4-thiazepane, diazepane, oxazepane, thiazepane, 3,4,5,6-tetrahydro-2H-azepine, 4,5,6,7-tetrahydro-1H-1,3-diazepine, 4,5,6,7- tetrahydro-1,3-oxazepine, 4,5,6,7-tetrahydro-1,3-thiazepine, 2,3,4,7-tetrahydro-1H-1,3-diazepine, or 2,3,4,7-tetrahydro-1,3-oxazepine. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is pyrrolidine, piperidine, morpholine, or piperazine. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5- membered heterocycloalkyl bearing at least one nitrogen atom. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heterocycloalkyl bearing at least one oxygen atom. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heterocycloalkyl bearing at least one oxygen atom and one nitrogen atom.
[0077] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is benzene, naphthalene, pyridine, pyrimidine, pyrazine, pyridazine, triazine, thiophene, furan, pyrrole, pyrazole, triazole, tetrazole, imidazole, thiazole, isothiazole, oxazole, isoxazole, indole, thiadiazole, oxadiazole, indazole, azaindole, azaindazole, indolizine, imidazopyridine, pyrazolo- pyridine, thiazolo-pyridine, pyrrolo-pyrimidine, thieno-pyrazole, benzimidazole, benzothiazole, benzoxazole, benzofuran, benzisoxazole, benzisothiazole, quinoline, isoquinoline, quinoxaline, quinazoline, cinnoline, benzotriazine, napthyridine, pyrido-pyrimidine, pyrido-pyrazine,
pyridopyridazine, isoxazolo-pyridine, or oxazolo-pyridine. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is benzene, pyridine, thiazole, triazole, tetrazole, oxadiazole, or thiadiazole. In some embodiments of a compound of Formula (Ia), (IIa), (IIa- 1), (Ib), (IIb), or (IIb-1), Ring A is benzene, pyridine, thiazole, triazole, tetrazole, imidazole, oxadiazole, or thiadiazole. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is thiazole. In some embodiments of a compound of Formula (Ia), (IIa), (IIa- 1), (Ib), (IIb), or (IIb-1), Ring A is not thiazole. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is benzene. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is benzene and p is 1-3. In some
embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is 6- membered aryl or 6-membered heteroaryl . In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is 6-membered aryl or 6-membered heteroaryl and p is 1-3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is 6- membered aryl or 6-membered heteroaryl and p is 1-4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is thiophene, furan, pyrrole, pyrazole, triazole, tetrazole, imidazole, isothiazole, oxazole, isoxazole, thiadiazole, and oxadiazole. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is naphthalene, pyridine, pyrimidine, pyrazine, pyridazine, triazine, indole, indazole, azaindole, azaindazole, indolizine, imidazopyridine, pyrazolo-pyridine, thiazolo-pyridine, pyrrolo-pyrimidine, thieno-pyrazole, benzimidazole, benzothiazole, benzoxazole, benzofuran, benzisoxazole,
benzisothiazole, quinoline, isoquinoline, quinoxaline, quinazoline, cinnoline, benzotriazine, napthyridine, pyrido-pyrimidine, pyrido-pyrazine, pyridopyridazine, isoxazolo-pyridine, or oxazolo- pyridine. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is pyridine, pyrimidine, pyrazine, or pyridazine. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is pyridine. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is benzene or pyridine.
[0078] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing at least two nitrogen atoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing at least three nitrogen atoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing four nitrogen atoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5- membered heteroaryl bearing only nitrogen atoms as heteroatoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing at least one oxygen atom. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ring A is a 5-membered heteroaryl bearing at least one sulfur atom.
[0079] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), at least one Y is halogen, alkyl, optionally substituted heteroaryl, -OH, -OR34, -O(CR30R31)wOH, - O(CR30R31)wOR34, -O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, -O(CR30R31)wNR32C(=O)OR34, -O(CR30R31)wNR32C(=O)NR32R33, -O(CR30R31)wC(=O)NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32R33, -NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, - NR32(CR30R31)wOR34, -NR32C(=O)R34, -NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, - NR32C(=O)NR32R33, -NR32C(=O)NR32(CR30R31)wNR32R33, -NR32C(=NR36)NR32R33, - N(R32)C(=NR36)R34, -NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32(CR30R31)vCO2H, -NR32(CR30R31)vCO2R34, - NR32(CR30R31)vC(=O)NR32R33, -N(R32)-heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, - NR32(CR30R31)vheteroaryl, -NR32(CR30R31)vheterocycloalkyl, -CN, -(CR30R31)vCN, - (CR30R31)vNR32R33, -(CR30R31)vOH, -(CR30R31)vOR34, -(CR30R31)vOC(=O)R34, - (CR30R31)vOC(=O)NR32R33, -(CR30R31)vO(CR30R31)wOR34, -(CR30R31)vO(CR30R31)wOH,- (CR30R31)vO(CR30R31)wNR32R33, -(CR30R31)vNR32(CR30R31)wOH, -(CR30R31)vNR32(CR30R31)wOR34, - (CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, -(CR30R31)vC(=O)OR34, - (CR30R31)vC(=O)NR32(CR30R31)wNR32R33, -(CR30R31)vC(=O)NR32(CR30R31)wOR34, - (CR30R31)vN(R32)C(=O)R34, -(CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, - (CR30R31)vN(R32)C(=O)(CR30R31)vNR32R33, -(CR30R31)vNR32(CR30R31)wNR32R33, - (CR30R31)vN(R32)CH(=NR36), -(CR30R31)vN(R32)C(=NR36)R34, -(CR30R31)vC(=NR36)NR32R33, - WSGR Doc et No.41223-728.601
(CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, - C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, or SR35.
[0080] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, alkyl, optionally substituted heteroaryl, -OH, -OR34, -NR32R33, - NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -NR32(CR30R31)wOR34, -NR32C(=O)R34, - NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, -NR32C(=O)NR32R33, - NR32C(=O)NR32(CR30R31)wNR32R33, -NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, - NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32(CR30R31)vCO2H, -NR32(CR30R31)vCO2R34, - NR32(CR30R31)vC(=O)NR32R33, -NR32(CR30R31)vheteroaryl, -NR32(CR30R31)vheterocycloalkyl, - (CR30R31)vNR32R33, -(CR30R31)vOC(=O)NR32R33,-(CR30R31)vO(CR30R31)wNR32R33, - (CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, -(CR30R31)vC(=O)OR34, - (CR30R31)vC(=O)NR32(CR30R31)wNR32R33, -(CR30R31)vC(=O)NR32(CR30R31)wOR34, - (CR30R31)vN(R32)C(=O)R34, -(CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, - (CR30R31)vN(R32)C(=O)(CR30R31)vNR32R33, -(CR30R31)vNR32(CR30R31)wNR32R33, - (CR30R31)vN(R32)CH(=NR36), -(CR30R31)vN(R32)C(=NR36)R34, -(CR30R31)vC(=NR36)NR32R33, - (CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, - C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, or SR35.
[0081] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, optionally substituted heteroaryl, -NR32R33, -OH, -OR34, - NR32(CR30R31)wNR32R33, -NR32C(=NR36)NR32R33, -(CR30R31)vNR32R33, -SR35, -NR32(CR31R31)vCO2H, -NR32(CR30R31)vC(=O)NR32R33, or -NR32(CR30R31)vheteroaryl; or two Ys are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently -NR32R33. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently -(CR30R31)vNR32R33. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently -NR32(CR30R31)wNR32R33. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently -OH. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, -NR32R33, -OH, -OR34, -NR32(CR30R31)wNR32R33, - C(=O)OH, or -C(=O)NR32R33. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, -NR32R33, -OH, -OR34, or - NR32(CR30R31)wNR32R33. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, -NR32R33, -OH, -C(=O)OH, or -C(=O)NR32R33. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently -OH or -OR34.
[0082] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, optionally substituted alkyl, -OH, -OR34, -O(CR30R31)wOH, - O(CR30R31)wOR34, -O(CR30R31)wNR32R33, -NR32R33, -NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, - (CR30R31) 0
vNR32R33, -(CR30R31)vC(=O)NR32R33, -(CR3 R31)vC(=O)OH, -(CR30R31)vC(=O)OR34, - C(=NR36)NR32R33, -S(=O)1,2R34, -S(=O)0,1,2NR32R33, -C(=O)NR32R33, -OC(=O)R34, - NR32S(=O)0,1,2R34, -O(CR30R31)wNR32R33, -C(=O)OH, -C(=O)OR34, -C(=O)NR32(CR30R31)wOH, or - C(=O)NR32(CR30R31)wOR34.
[0083] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, optionally substituted alkyl, -OH, -OR34, -O(CR30R31)wOH, - O(CR30R31)wOR34, -O(CR30R31)wNR32R33, -NR32R33, -NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, - (CR30R31)vNR32R33, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, -(CR30R31)vC(=O)OR34, - C(=NR36)NR32R33, -S(=O)1,2R34, -S(=O)0,1,2NR32R33, -C(=O)NR32R33, -OC(=O)R34, or - NR32S(=O)0,1,2R34.
[0084] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, optionally substituted alkyl, -OH, -OR34, -O(CR30R31)wOH, - O(CR30R31)wOR34, -O(CR30R31)wNR32R33, -NR32R33, -NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, - (CR30R31)vNR32R33, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, -(CR30R31)vC(=O)OR34, - C(=NR36)NR32R33, -S(=O)1,2R34, -S(=O)0,1,2NR32R33, -O(CR30R31)wNR32R33, -C(=O)OH, -C(=O)OR34, -C(=O)NR32(CR30R31)wOH, or -C(=O)NR32(CR30R31)wOR34.
[0085] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, optionally substituted alkyl, -OH, -OR34, -O(CR30R31)wOH, - O(CR30R31)wOR34, -O(CR30R31) 2
wNR32R33, -NR3 R33, -NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, - (CR30R31)vNR32R33, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, -(CR30R31)vC(=O)OR34, - C(=NR36)NR32R33, -S(=O)1,2R34, or -S(=O)0,1,2NR32R33.
[0086] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently halogen, -OH, or -OR34.
[0087] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), two Ys are taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), two Ys are taken together with the atoms to which they are attached to form a heterocycloalkyl optionally substituted with alkyl or halogen.
[0088] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is defined by the inclusion of non-hydrogen atoms. In some embodiments, each Y comprises at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 12, 14, 16, 18, 20, 24, 28, 32, 36, 40, 50, or 60 non-hydrogen atoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y comprises fewer than 50, 40, 36, 32, 28, 24, 20, 18, 16, 14, 12, 10, 9, 8, 7, 6, 5, 4, 3 or 2 non-hydrogen atoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently a group comprising 1-50 non-hydrogen atoms. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), non-hydrogen atoms are atoms generally found in organic molecules. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), non-hydrogen atoms are atoms selected from the group consisting of halogen, C, N, O, S, and P. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently a group comprising 1-50 non-hydrogen atoms selected from the group consisting of halogen, C, N, O, S, and P. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is independently a group comprising 1-50 non- hydrogen atoms selected from the group consisting of halogen, C, N, and O.
[0089] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is defined by its molecular formula. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y has the formula CaHbNcOd; wherein each a is independently 0-30; each b is independently 1-69; each c is independently 1-8; and each d is independently 0-10. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y has the formula CaHbNcOd; wherein each a is independently 0-10; each b is independently 1-25; each c is independently 1-4; and each d is independently 0-3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each c is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each c is at least 2.
[0090] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y is defined by its molecular weight. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y has a molecular weight of less than 500, 450, 400, 350, 300, 250, 200, 190, 180, 170, 160, 150, 140, 130, 120, 110, 100, 90, 80, 75, 70, or 50 daltons. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y has a molecular weight of less than 200 daltons. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y has a molecular weight of less than 150 daltons. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Y has a molecular weight between 30 and 280 daltons.
[0091] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1),
Figure imgf000046_0001
.
[0092] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 0-2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 1-3.. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 1- 4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 2 or 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is not 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), p is 3.
[0093] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is hydrogen.
[0094] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y.
[0095] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is halogen, alkyl, -OH, -OR34, -O(CR30R31)wOH, -O(CR30R31)wOR34, - O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, -O(CR30R31)wNR32C(=O)OR34, - O(CR30R31)wNR32C(=O)NR32R33, -O(CR30R31)wC(=O)NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32R33, -NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, - NR32(CR30R31)wOR34, -NR32C(=O)R34, -NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, - NR32C(=O)NR32R33, -NR32C(=O)NR32(CR30R31)wNR32R33, -NR32C(=NR36)NR32R33, - N(R32)C(=NR36)R34, -NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32(CR30R31)vCO2H, -NR32(CR30R31)vCO2R34, - NR32(CR30R31)vC(=O)NR32R33, -N(R32)-heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, - NR32(CR30R31)vheteroaryl, -NR32(CR30R31)vheterocycloalkyl, -CN, -(CR30R31)vCN, - (CR30R31)vNR32R33, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, -C(=O)NR32(CR30R31)wNR32R33, - C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, -C(=NR36)NR32R33, - C(=NR36)NR32C(=O)R34, or SR35.
[0096] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is halogen, alkyl, -OH, -OR34, -NR32R33, -NR32(CR30R31)wNR32R33, - NR32(CR30R31)wOH, -NR32(CR30R31)wOR34, -NR32C(=O)R34, -NR32C(=O)OR34, - N(R32)C(=O)(CR30R31)vNR32R33, -NR32C(=O)NR32R33, -NR32C(=O)NR32(CR30R31)wNR32R33, - NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, -NR32(CR30R31)wN(R32)C(=NR36)R34, - NR32(CR30R31)vC(=NR36)NR32R33, -NR32(CR30R31)wN(R32)C(=NR36)NR32R33, - NR32(CR30R31)wNR32C(=O)NR32R33,-NR32(CR30R31)wNR32C(=O)OR34, -NR32(CR30R31)vCO2H, - NR32(CR30R31)vCO2R34, -NR32(CR30R31)vC(=O)NR32R33, -NR32(CR30R31)vheteroaryl, - NR32(CR30R31)vheterocycloalkyl, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, - C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, or SR35.
[0097] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is halogen, -NR32R33, -OH, -OR34, -NR32(CR30R31)wNR32R33, -NR32C(=NR36)NR32R33, -SR35, -NR32(CR31R31)vCO2H, -NR32(CR30R31)vC(=O)NR32R33, -C(=O)OH, -C(=O)OR34, or - C(=O)NR32R33.
[0098] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is -NR32R33, -OH, -NR32C(=NR36)NR32R33, -C(=O)OH, or -C(=O)NR32R33.
[0099] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y -NR32R33, -OH, -C(=O)OH, or -C(=O)NR32R33.
[00100] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is -OH, -OR34, -NR32R33, -NR32C(=O)R34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, -C(=O)OH, or -C(=O)OR34.
[00101] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is -OR34, -NR32R33, -NR32C(=O)R34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, - C(=O)OH, or -C(=O)OR34.
[00102] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is -NR32C(=O)R34.
[00103] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is -NR32S(=O)0,1,2NR32R33.
[00104] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is is -C(=O)OH.
[00105] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is -OH.
[00106] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is -NR32R33.
[00107] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), A1 is Y; and Y is -OR34.
[00108] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above and R30 and R31 are independently hydrogen or optionally substituted alkyl; or two R30 on adjacent carbon form an alkenyl.
[00109] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above and R32 and R33 are independently hydrogen or optionally substituted alkyl; or R32 and R33 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl.
[00110] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above and R34 is optionally substituted alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above and R34 is substituted alkyl.
[00111] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above and R35 is hydrogen or optionally substituted alkyl. [00112] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above and R36 is hydrogen or optionally substituted alkyl.
[00113] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above, R30 and R31 are independently hydrogen or optionally substituted alkyl; or two R30 on adjacent carbon form an alkenyl; R32 and R33 are independently hydrogen or optionally substituted alkyl; or R32 and R33 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl; R34 is optionally substituted alkyl; R35 is hydrogen or optionally substituted alkyl; R36 is hydrogen or optionally substituted alkyl; v is 1 or 2; and w is 2 or 3.
[00114] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above and v is 1 or 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa- 1), (Ib), (IIb), or (IIb-1), v is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), v is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), v is 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), v is 4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), v is 5.
[00115] In some embodiments of a compound ofFormula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Y is defined as above and w is 2 or 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa- 1), (Ib), (IIb), or (IIb-1), w is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), w is 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), w is 4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), w is 5.
[00116] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra, Rb, and Rc are independently hydrogen, optionally substituted alkyl, fluoro, chloro, -OH, -OR54, - C(=O)H, -C(=O)OH, -(CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vC(=O)OH, - (CR50R51)vC(=O)OR54, or -(CR50R51)vheterocycloalkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra, Rb, and Rc are independently hydrogen, fluoro, chloro, optionally substituted alkyl, -(CR50R51)vC(=O)OH, or -(CR50R51)vheterocycloalkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra, Rb, and Rc are hydrogen.
[00117] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra, Rb, and Rc are independently hydrogen, optionally substituted alkyl, fluoro, chloro, -OH, -OR54, - C(=O)H, -SR55, or ­S(CR50R51)vOH.
[00118] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), at least one of Ra, Rb, and Rc is halogen, cyano, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, -O(CR50R51)wOH, -O(CR50R51)wOR54, - O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, -O(CR50R51)vC(=O)NR52R53, -NR52R53, - WSGR Doc et No.41223-728.601
NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, -NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, -S(=O)1,2R54, -SR55,
­S(CR50R51)vNR52C(=NR56)NR52R53, ­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, - S(CR50R51)wOH, -S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, - S(CR50R51)vC(=O)OR54, -S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, -(CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, - (CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53, ­(CR50R51)vOC(=O)R54, - (CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51) 51
vNR52R53, -(CR50R )vC(=NR56)NR52R53, - (CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or -(CR50R51)vheteroaryl.
[00119] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), at least one of Ra, Rb, or Rc is optionally substituted alkyl, fluoro, chloro, -OH, -OR54, -C(=O)H, - C(=O)OH, -(CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51) 0
vOH, -(CR5 R51)vC(=O)OH, or - (CR50R51)vC(=O)OR54, or -(CR50R51)vheterocycloalkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), at least one of Ra, Rb, or Rc is alkyl optionally substituted with heterocycloalkyl (optionally substituted with optionally substituted alkyl). In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), at least one of Ra, Rb, or Rc is -(CR50R51)vheterocycloalkyl optionally substituted with optionally substituted alkyl.
[00120] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rc is halogen, cyano, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, -O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, - O(CR50R51)vC(=O)OR54, -O(CR50R51) 2
vC(=O)NR52R53, -NR5 R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, - NR52S(=O)1,2R54, -S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, -S(CR50R51)wOR54, - S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, -S(CR50R51)vC(=O)NR52R53, - C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, -(CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, -(CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, - (CR50R51)vC(=O)NR52R53, ­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), - (CR50R51)vNR52R53, -(CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, - (CR50R51)vheterocycloalkyl, or -(CR50R51)vheteroaryl.
[00121] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rc is halogen, -OH, -OR54, -S(CR50R51)wOH, -S(CR50R51)vC(=O)OH, or -S(CR50R51)vC(=O)NR52R53.
[00122] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rb is halogen, cyano, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, -O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, - O(CR50R51)vC(=O)OR54, -O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - WSGR Doc et No.41223-728.601
NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, - NR52S(=O)1,2R54, -S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, -S(CR50R51)wOR54, - S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, -S(CR50R51)vC(=O)NR52R53, - C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, -(CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, -(CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, - (CR50R51)vC(=O)NR52R53, ­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), - (CR50R51)vNR52R53, -(CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, - (CR50R51)vheterocycloalkyl, or -(CR50R51)vheteroaryl.
[00123] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rb is halogen, -OH, -OR54, -S(CR50R51)wOH, -S(CR50R51)vC(=O)OH, or -S(CR50R51)vC(=O)NR52R53.
[00124] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra, Rb, or Rc are defined as above, R50 and R51 are independently hydrogen or optionally substituted alkyl; or two R50 on adjacent carbon form an alkenyl; R52 and R53 are independently hydrogen or optionally substituted alkyl; or R52 and R53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl; R54 is optionally substituted alkyl; R55 is hydrogen or optionally substituted alkyl; R56 is hydrogen or optionally substituted alkyl; each v is independently 1 or 2; and each w is independently 2 or 3.
[00125] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rb is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rc is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra is not hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rb is not hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rc is not hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra and Rb are hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Ra and Rc are hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rb and Rc are hydrogen.
[00126] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), X1 is -OH and X2 is ­OH when present. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), X1 and X2 are taken together with the boron atom to which they are attached to form a cyclic boronate ester.
[00127] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rd is hydrogen or alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rd is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Rd is alkyl.
[00128] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Re is independently hydrogen or alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Re is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each Re is independently alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), one Re is hydrogen and the other Re is alkyl
[00129] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 1-3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0-2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 1 or 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0 or 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 2 or 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 3.
[00130] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0-4. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0-3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 1- 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0-2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 1 or 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0 or 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 2 or 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 2. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), m is 3. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0 or 1 and m is 0 or 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0 and m is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0 and m is 1. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 1 and m is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 2 and m is 0. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), n is 0 and m is 2.
[00131] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each R1 and R2 is independently hydrogen, -OH, fluoro, chloro, bromo, or optionally substituted alkyl.
[00132] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each R1 and R2 is independently hydrogen, fluoro, chloro, bromo, or optionally substituted alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), each R1 and R2 is hydrogen. [00133] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Z is hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Z is not hydrogen. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Z is R61; and R61 is optionally substituted alkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Z is -R60OC(=O)R61 or -R60OC(=O)OR61; R60 is - CH2- or -CH(CH3)-; and R61 is optionally substituted alkyl, optionally substituted cycloalkyl, or optionally substituted heterocycloalkyl. In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), Z is -R60OC(=O)R61 or -R60OC(=O)OR61; R60 is -CH2- or -CH(CH3)-; and R61 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl.
[00134] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1),
the compound is of formula:
Figure imgf000053_0001
Figure imgf000053_0002
. [00135] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1),
the compound is of formula:
Figure imgf000054_0001
Figure imgf000054_0002
.
[00136] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1),
the compound is of formula:
Figure imgf000054_0003
Figure imgf000054_0004
. [00137] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1),
the compound is of formula:
Figure imgf000055_0001
Figure imgf000055_0002
.
[00138] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1),
the compound is of formula:
Figure imgf000055_0003
.
[00139] In some embodiments of a compound of Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1),
the compound is of formula:
Figure imgf000055_0004
. Preparation of Compounds
[00140] Described herein are compounds of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb- 1) that inhibit the activity of penicillin-binding proteins, and processes for their preparation. Also described herein are pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer of compounds of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1).
[00141] Compounds of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1) may be synthesized using standard synthetic reactions known to those of skill in the art or using methods known in the art. The reactions can be employed in a linear sequence to provide the compounds or they may be used to synthesize fragments which are subsequently joined by the methods known in the art.
[00142] The starting material used for the synthesis of the compounds described herein may be synthesized or can be obtained from commercial sources. The compounds described herein, and other related compounds having different substituents can be synthesized using techniques and materials known to those of skill in the art, such as described, for example, in March, ADVANCED ORGANIC CHEMISTRY 4th Ed., (Wiley 1992); Carey and Sundberg, ADVANCED ORGANIC CHEMISTRY 4th Ed., Vols. A and B (Plenum 2000, 2001); Green and Wuts, PROTECTIVE GROUPS IN ORGANIC SYNTHESIS 3rd Ed., (Wiley 1999); Fieser and Fieser’s Reagents for Organic Synthesis, Volumes 1-17 (John Wiley and Sons, 1991); Rodd’s Chemistry of Carbon Compounds, Volumes 1-5 and Supplementals (Elsevier Science Publishers, 1989); Organic Reactions, Volumes 1-40 (John Wiley and Sons, 1991); and Larock’s Comprehensive Organic Transformations (VCH Publishers Inc., 1989) (all of which are incorporated by reference in their entirety). General methods for the preparation of compound as disclosed herein may be derived from known reactions in the field, and the reactions may be modified by the use of appropriate reagents and conditions, as would be recognized by the skilled person, for the introduction of the various moieties found in the formulae as provided herein.
[00143] The products of the reactions may be isolated and purified, if desired, using conventional techniques, including, but not limited to, filtration, distillation, crystallization, chromatography, and the like. Such materials may be characterized using conventional means, including physical constants and spectral data. Further Forms of Compounds Disclosed Herein
Isomers/Stereoisomers
[00144] In some embodiments, due to the oxophilic nature of the boron atom, the compounds described herein may convert to, or exist in equilibrium with, alternate forms, particularly in milieu that contain water (aqueous solution, plasma, etc.). Accordingly, the compounds described herein may exist in an equilibrium between the“closed” cyclic form shown in Formula (Ia), (IIa), or (IIa-1) and the“open” acyclic form shown in Formula (Ib), (IIb), or (IIb-1). In addition the compounds described herein may associate into intramolecular dimers, trimers, and related combinations.
[00145] Furthermore, in some embodiments, the compounds described herein exist as geometric isomers. In some embodiments, the compounds described herein possess one or more double bonds. The compounds presented herein include all cis, trans, syn, anti, entgegen (E), and zusammen (Z) isomers as well as the corresponding mixtures thereof. In some situations, the compounds described herein possess one or more chiral centers and each center exists in the R configuration, or S confirguration. The compounds described herein include all diastereomeric, enantiomeric, and epimeric forms as well as the corresponding mixtures thereof. In additional embodiments of the compounds and methods provided herein, mixtures of enantiomers and/or diastereoisomers, resulting from a single preparative step, combination, or interconversion are useful for the applications described herein. In some embodiments, the compounds described herein are prepared as their individual stereoisomers by reacting a racemic mixture of the compound with an optically active resolving agent to form a pair of diastereoisomeric compounds, separating the diastereomers and recovering the optically pure enantiomers. In some embodiments, dissociable complexes are preferred (e.g., crystalline diastereomeric salts). In some embodiments, the diastereomers have distinct physical properties (e.g., melting points, boiling points, solubilities, reactivity, etc.) and are separated by taking advantage of these dissimilarities. In some embodiments, the diastereomers are separated by chiral chromatography, or preferably, by separation/resolution techniques based upon differences in solubility. In some embodiments, the optically pure enantiomer is then recovered, along with the resolving agent, by any practical means that would not result in racemization. Compounds described herein may be prepared as a single isomer or a mixture of isomers.
Tautomers
[00146] In some situations, compounds described herein exist as tautomers. The compounds described herein include all possible tautomers within the formulas described herein. A“tautomer” refers to a proton shift from one atom of a molecule to another atom of the same molecule. The compounds presented herein may exist as tautomers. Tautomers are compounds that are
interconvertible by migration of a hydrogen atom, accompanied by a switch of a single bond and adjacent double bond. In bonding arrangements where tautomerization is possible, a chemical equilibrium of the tautomers will exist. All tautomeric forms of the compounds disclosed herein are contemplated. The exact ratio of the tautomers depends on several factors, including temperature, solvent, and pH. Labeled compounds
[00147] In some embodiments, the compounds described herein exist in their isotopically-labeled forms. In some embodiments, the methods disclosed herein include methods of treating diseases by administering such isotopically-labeled compounds. In some embodiments, the methods disclosed herein include methods of treating diseases by administering such isotopically-labeled compounds as pharmaceutical compositions. Thus, in some embodiments, the compounds disclosed herein include isotopically-labeled compounds, which are identical to those recited herein, but for the fact that one or more atoms are replaced by an atom having an atomic mass or mass number different from the atomic mass or mass number usually found in nature. Examples of isotopes that can be incorporated into compounds described herein include isotopes of hydrogen, carbon, nitrogen, oxygen, phosphorous, sulfur, fluorine, and chloride, such as 2H, 3H, 13C, 14C, l5N, 18O, 17O, 31P, 32P, 35S, 18F, and 36Cl, respectively. Compounds described hereinwhich contain the aforementioned isotopes and/or other isotopes of other atoms are within the scope of this invention. Certain isotopically-labeled compounds, for example those into which radioactive isotopes such as 3H and 14C are incorporated, are useful in drug and/or substrate tissue distribution assays. Tritiated, i. e., 3H and carbon-14, i. e., 14C, isotopes are particularly preferred for their ease of preparation and detectability. Further, substitution with heavy isotopes such as deuterium, i.e., 2H, produces certain therapeutic advantages resulting from greater metabolic stability, for example increased in vivo half-life or reduced dosage requirements. In some embodiments, the isotopically labeled compounds, pharmaceutically acceptable salt, ester, prodrug, solvate, hydrate, or derivative thereof is prepared by any suitable method.
[00148] In some embodiments, the compounds described herein are labeled by other means, including, but not limited to, the use of chromophores or fluorescent moieties, bioluminescent labels, or chemiluminescent labels. Pharmaceutically acceptable salts
[00149] In some embodiments, the compounds described herein exist as their pharmaceutically acceptable salts. In some embodiments, the methods disclosed herein include methods of treating diseases by administering such pharmaceutically acceptable salts. In some embodiments, the methods disclosed herein include methods of treating diseases by administering such pharmaceutically acceptable salts as pharmaceutical compositions.
[00150] In some embodiments, the compounds described herein possess acidic or basic groups and therefore react with any of a number of inorganic or organic bases, and inorganic and organic acids, to form a pharmaceutically acceptable salt. In some embodiments, these salts are prepared in situ during the final isolation and purification of the compounds described herein, or by separately reacting a purified compound in its free form with a suitable acid or base, and isolating the salt thus formed.
[00151] Examples of pharmaceutically acceptable salts include those salts prepared by reaction of the compounds described herein with a mineral, organic acid or inorganic base, such salts including, acetate, acrylate, adipate, alginate, aspartate, benzoate, benzenesulfonate, bisulfate, bisulfite, bromide, butyrate, butyn-1,4-dioate, camphorate, camphorsulfonate, caproate, caprylate, chlorobenzoate, chloride, citrate, cyclopentanepropionate, decanoate, digluconate, dihydrogenphosphate,
dinitrobenzoate, dodecylsulfate, ethanesulfonate, formate, fumarate, glucoheptanoate,
glycerophosphate, glycolate, hemisulfate, heptanoate, hexanoate, hexyne-1,6-dioate,
hydroxybenzoate, g-hydroxybutyrate, hydrochloride, hydrobromide, hydroiodide, 2- hydroxyethanesulfonate, iodide, isobutyrate, lactate, maleate, malonate, methanesulfonate, mandelate metaphosphate, methanesulfonate, methoxybenzoate, methylbenzoate, monohydrogenphosphate, 1- napthalenesulfonate, 2-napthalenesulfonate, nicotinate, nitrate, palmoate, pectinate, persulfate, 3- phenylpropionate, phosphate, picrate, pivalate, propionate, pyrosulfate, pyrophosphate, propiolate, phthalate, phenylacetate, phenylbutyrate, propanesulfonate, salicylate, succinate, sulfate, sulfite, succinate, suberate, sebacate, sulfonate, tartrate, thiocyanate, tosylateundeconate, and xylenesulfonate.
[00152] Further, the compounds described herein can be prepared as pharmaceutically acceptable salts formed by reacting the free base form of the compound with a pharmaceutically acceptable inorganic or organic acid, including, but not limited to, inorganic acids such as hydrochloric acid, hydrobromic acid, sulfuric acid, nitric acid, phosphoric acid metaphosphoric acid, and the like; and organic acids such as acetic acid, propionic acid, hexanoic acid, cyclopentanepropionic acid, glycolic acid, pyruvic acid, lactic acid, malonic acid, succinic acid, malic acid, maleic acid, fumaric acid, p- toluenesulfonic acid, tartaric acid, trifluoroacetic acid, citric acid, benzoic acid, 3-(4- hydroxybenzoyl)benzoic acid, cinnamic acid, mandelic acid, arylsulfonic acid, methanesulfonic acid, ethanesulfonic acid, 1,2-ethanedisulfonic acid, 2-hydroxyethanesulfonic acid, benzenesulfonic acid, 2- naphthalenesulfonic acid, 4-methylbicyclo-[2.2.2]oct-2-ene-1-carboxylic acid, glucoheptonic acid, 4,4’-methylenebis-(3-hydroxy-2-ene-1 -carboxylic acid), 3-phenylpropionic acid, trimethylacetic acid, tertiary butylacetic acid, lauryl sulfuric acid, gluconic acid, glutamic acid, hydroxynaphthoic acid, salicylic acid, stearic acid, and muconic acid. In some embodiments, other acids, such as oxalic, while not in themselves pharmaceutically acceptable, are employed in the preparation of salts useful as intermediates in obtaining the compounds described herein and their pharmaceutically acceptable acid addition salts.
[00153] In some embodiments, those compounds described herein which comprise a free acid group react with a suitable base, such as the hydroxide, carbonate, bicarbonate, sulfate, of a
pharmaceutically acceptable metal cation, with ammonia, or with a pharmaceutically acceptable organic primary, secondary, tertiary, or quaternary amine. Representative salts include the alkali or alkaline earth salts, like lithium, sodium, potassium, calcium, and magnesium, and aluminum salts and the like. Illustrative examples of bases include sodium hydroxide, potassium hydroxide, choline hydroxide, sodium carbonate, N+(C1-4 alkyl)4, and the like.
[00154] Representative organic amines useful for the formation of base addition salts include ethylamine, diethylamine, ethylenediamine, ethanolamine, diethanolamine, piperazine, and the like. It should be understood that the compounds described herein also include the quaternization of any basic nitrogen-containing groups they contain. In some embodiments, water or oil-soluble or dispersible products are obtained by such quaternization.
Solvates
[00155] In some embodiments, the compounds described herein exist as solvates. The invention provides for methods of treating diseases by administering such solvates. The invention further provides for methods of treating diseases by administering such solvates as pharmaceutical compositions.
[00156] Solvates contain either stoichiometric or non-stoichiometric amounts of a solvent, and, in some embodiments, are formed during the process of crystallization with pharmaceutically acceptable solvents such as water, ethanol, and the like. Hydrates are formed when the solvent is water, or alcoholates are formed when the solvent is alcohol. Solvates of the compounds described herein can be conveniently prepared or formed during the processes described herein. By way of example only, hydrates of the compounds described herein can be conveniently prepared by recrystallization from an aqueous/organic solvent mixture, using organic solvents including, but not limited to, dioxane, tetrahydrofuran, or methanol. In addition, the compounds provided herein can exist in unsolvated as well as solvated forms. In general, the solvated forms are considered equivalent to the unsolvated forms for the purposes of the compounds and methods provided herein. Pharmaceutical Compositions/Formulations
[00157] In another aspect, provided herein are pharmaceutical compositions comprising a compound described herein, or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N- oxide, dimer, or trimer thereof, and a pharmaceutically acceptable excipient. In some embodiments, the pharmaceutical composition further comprises a beta-lactam antibiotic. In certain embodiments, the beta-lactam antibiotic is a penicillin, cephalosporin, carbapenem, monobactam, bridged monobactam, or a combination thereof.
[00158] In some embodiments, the compounds described herein are formulated into pharmaceutical compositions. Pharmaceutical compositions are formulated in a conventional manner using one or more pharmaceutically acceptable inactive ingredients that facilitate processing of the active compounds into preparations that can be used pharmaceutically. Proper formulation is dependent upon the route of administration chosen. A summary of pharmaceutical compositions described herein can be found, for example, in Remington: The Science and Practice of Pharmacy, Nineteenth Ed (Easton, Pa.: Mack Publishing Company, 1995); Hoover, John E., Remington’s Pharmaceutical Sciences, Mack Publishing Co., Easton, Pennsylvania 1975; Liberman, H.A. and Lachman, L., Eds., Pharmaceutical Dosage Forms, Marcel Decker, New York, N.Y., 1980; and Pharmaceutical Dosage Forms and Drug Delivery Systems, Seventh Ed. (Lippincott Williams & Wilkins1999), herein incorporated by reference for such disclosure.
[00159] A pharmaceutical composition, as used herein, refers to a mixture of a compound described herein with other chemical components (i.e. pharmaceutically acceptable inactive ingredients), such as carriers, excipients, binders, filling agents, suspending agents, flavoring agents, sweetening agents, disintegrating agents, dispersing agents, surfactants, lubricants, colorants, diluents, solubilizers, moistening agents, plasticizers, stabilizers, penetration enhancers, wetting agents, anti-foaming agents, antioxidants, preservatives, or one or more combination thereof. The pharmaceutical composition facilitates administration of the compound to an organism. In practicing the methods of treatment or use provided herein, therapeutically effective amounts of compounds described herein are administered in a pharmaceutical composition to a mammal having a disease, disorder, or condition to be treated. In some embodiments, the mammal is a human. A therapeutically effective amount can vary widely depending on the severity of the disease, the age and relative health of the subject, the potency of the compound used and other factors. The compounds can be used singly or in combination with one or more therapeutic agents as components of mixtures.
[00160] The pharmaceutical formulations described herein are administered to a subject by appropriate administration routes, including, but not limited to, oral, parenteral (e.g., intravenous, subcutaneous, intramuscular), intranasal, buccal, topical, rectal, or transdermal administration routes. The pharmaceutical formulations described herein include, but are not limited to, aqueous liquid dispersions, liquids, gels, syrups, elixirs, slurries, suspensions, self-emulsifying dispersions, solid solutions, liposomal dispersions, aerosols, solid oral dosage forms, powders, immediate release formulations, controlled release formulations, fast melt formulations, tablets, capsules, pills, powders, dragees, effervescent formulations, lyophilized formulations, delayed release formulations, extended release formulations, pulsatile release formulations, multiparticulate formulations, and mixed immediate and controlled release formulations. Combination Treatment
[00161] The compoundsdescribed herein may be used in combination with one or more antibiotics in the treatment of bacterial infections. Such antibiotics may be administered, by a route and in an amount commonly used therefore, contemporaneously or sequentially with a compound described herein. When a compound described herein is used contemporaneously with one or more antibiotic, a pharmaceutical composition in unit dosage form containing such other drugs and the compound of the present invention is preferred. However, the combination therapy may also include therapies in which the compound described herein and one or more antibiotic are administered on different overlapping schedules. It is also contemplated that when used in combination with one or more antibiotics, the antibiotics may be used in lower doses than when each is used singly.
[00162] Accordingly, the pharmaceutical compositions of the present invention also include those that contain one or more antibiotics, in addition to a compound described herein. In some
embodiments, a pharmaceutical composition comprising a compound described hereinfurther comprises a beta-lactam antibiotic. In certain embodiments, the beta-lactam antibiotic is a penicillin, cephalosporin, carbapenem, monobactam, bridged monobactam, or a combination thereof.
[00163] In some embodiments, the compounds described hereinare used in combination with one or more antibiotics in the treatment of bacterial infections. In certain embodiments, the bacterial infection is a upper or lower respiratory tract infection, a urinary tract infection, a intra-abdominal infection, or a skin infection. In some embodiments, the bacterial infection is an upper or lower respiratory tract infection, a urinary tract infection, an intra-abdominal infection, or a skin infection. In some embodiments, the bacterial infection is uncomplicated or complicated urinary tract infections, uncomplicated or complicated gonorrhea, upper or lower respiratory tract infections, skin or skin structure infections, intra-abdominal infections, central nervous system infections, blood stream infections, or systemic infections. [00164] In some embodiments, the one or more antibiotics are selected from b-lactam antibiotics.b- Lactam antibiotics include, but are not limited to, penicillins, penems, carbapenems, cephalosporins, cephamycins, monobactams, or combinations thereof. Penicillins include, but are not limited to, amoxicillin, ampicillin, azidocillin, azlocillin, bacampicillin, benzathinebenzylpenicillin,
benzathinephenoxymethylpenicillin, benzylpenicillin (G), carbenicillin, carindacillin, clometocillin, cloxacillin, dicloxacillin, epicillin, flucloxacillin, hetacillin, mecillinam, metampicillin, meticillin, mezlocillin, nafcillin, oxacillin, penamecillin, pheneticillin, phenoxymethylpenicillin (V), piperacillin, pivampicillin, pivmecillinam, procaine benzylpenicillin, propicillin, sulbenicillin, talampicillin, temocillin, and ticarcillin. Penems include, but are not limited to, faropenem. Carbapenems include, but are not limited to, biapenem, ertapenem, doripenem, imipenem, meropenem, and panipenem. Cephalosporins/Cephamycins include, but are not limited to, cefacetrile, cefaclor, cefadroxil, cefalexin, cefaloglycin, cefalonium, cefaloridine, cefalotin, cefamandole, cefapirin, cefatrizine, cefazaflur, cefazedone, cefazolin, cefbuperazone, cefcapene, cefdaloxime, cefdinir, cefditoren, cefepime, cefetamet, cefixime, cefmenoxime, cefmetazole, cefminox, cefodizime, cefonicid, cefoperazone, ceforanide, cefotaxime, cefotetan, cefotiam, cefovecin, cefoxitin, cefozopran, cefpimizole, cefpiramide, cefpirome, cefpodoxime, cefprozil, cefquinome, cefquinome, cefradine, cefroxadine, cefsulodin, ceftarolinefosamil, ceftazidime, cefteram, ceftezole, ceftibuten, ceftiofur, ceftiolene, ceftizoxime, ceftobiprole, ceftriaxone, cefuroxime, cefuzonam, flomoxef, latamoxef, and loracarbef. Monobactams include, but are not limited to, aztreonam, carumonam, nocardicinA, and tigemonam. Methods
[00165] The present disclosure also provides methods for inhibiting bacterial growth, such methods comprising contacting a bacterial cell culture, or a bacterially infected cell culture, tissue, or organism, with a penicillin-binding protein inhibitor described herein. Preferably, the bacteria to be inhibited by administration of a penicillin-binding protein inhibitor described hereinare bacteria that are resistant to beta-lactam antibiotics. The term“resistant” is well-understood by those of ordinary skill in the art (see, e g Payne et al., Antimicrobial Agents and Chemotherapy 38767-772 (1994), Hanaki et al., Antimicrobial Agents and Chemotherapy 301120-1126 (1995)). In some embodiments, the penicillin- binding protein inhibitor described hereinis used to treat a bacterial infection that is resistant to beta- lactam antibiotic. In some embodiments, the penicillin-binding protein inhibitor described hereinis used to treat a bacterial infection that has developed beta-lactamase enzymes.
[00166] These methods are useful for inhibiting bacterial growth in a variety of contexts.In certain embodiments, a compound described herein is administered to an experimental cell culture in vitro to prevent the growth of beta-lactam resistant bacteria. In some embodiments, a compound described herein is administered to a mammal, including a human, to prevent the growth of beta-lactam resistant bacteria in vivo. The method according to this embodiment comprises administering a therapeutically effective amount of a penicillin-binding protein inhibitor described hereinfor a therapeutically effective period of time to a mammal, including a human. Preferably, the penicillin-binding protein inhibitor described hereinis administered in the form of a pharmaceutical composition as described above.
[00167] In another aspect provided herein are methods of treating a bacterial infection, which method comprises administering to a subject a pharmaceutical composition comprising a compound described herein, or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, and a pharmaceutically acceptable excipient. In some embodiments, the methods of treating a bacterial infection in a subject comprises administering to the subject a pharmaceutical composition as described herein. In some embodiments, the bacterial infection is an upper or lower respiratory tract infection, a urinary tract infection, an intra-abdominal infection, or a skin infection. In some embodiments, the bacterial infection is an upper or lower respiratory tract infection, a urinary tract infection, an intra-abdominal infection, or a skin infection. In some embodiments, the bacterial infection is uncomplicated or complicated urinary tract infections, uncomplicated or complicated gonorrhea, upper or lower respiratory tract infections, skin or skin structure infections, intra-abdominal infections, central nervous system infections, blood stream infections, or systemic infections.
[00168] In some embodiments, the infection that is treated or prevented is cause by a bacteria that includes Pseudomonas aeruginosa, Pseudomonas fluorescens, Pseudomonas acidovorans,
Pseudomonas alcaligenes, Pseudomonas putida, Stenotrophomonas maltophilia, Burkholderia cepacia, Aeromonas hydrophilia, Escherichia coli, Citrobacter freundii, Salmonella typhimurium, Salmonella typhi, Salmonella paratyphi, Salmonella enteritidis, Shigella dysenteriae, Shigella flexneri, Shigella sonnei, Enterobacter cloacae, Enterobacter aerogenes, Klebsiella pneumoniae, Klebsiella oxytoca, Serratia marcescens, Francisella tularensis, Morganella morganii, Proteus mirabilis, Proteus vulgaris, Providencia alcalifaciens, Providencia rettgeri, Providencia stuartii, Acinetobacter baumannii, Acinetobacter calcoaceticus, Acinetobacter haemolyticus, Yersinia enterocolitica, Yersinia pestis, Yersinia pseudotuberculosis, Yersinia intermedia, Bordetella pertussis, Bordetella parapertussis, Bordetella bronchiseptica, Haemophilus influenzae, Haemophilus parainfluenzae, Haemophilus haemolyticus, Haemophilus parahaemolyticus, Haemophilus ducreyi, Pasteurella multocida, Pasteurella haemolytica, Branhamella catarrhalis, Helicobacter pylori, Campylobacter fetus, Campylobacter jejuni, Campylobacter coli, Borrelia burgdorferi, Vibrio cholerae, Vibrio parahaemolyticus, Legionella pneumophila, Listeria monocytogenes, Neisseria gonorrhoeae, Neisseria meningitidis, Kingella kingae, Moraxella catarrhalis, Gardnerella vaginalis, Bacteroides fragilis, Bacteroides distasonis, Bacteroides 3452A homology group, Bacteroides vulgatus,
Bacteroides ovalus, Bacteroides thetaiotaomicron, Bacteroides uniformis, Bacteroides eggerthii, Bacteroides splanchnicus, Clostridium difficile, Mycobacterium tuberculosis, Mycobacterium avium, Mycobacterium intracellulare, Mycobacterium leprae, Corynebacterium diphtheriae,
Corynebacterium ulcerans, Streptococcus pneumoniae, Streptococcus agalactiae, Streptococcus pyogenes, Enterococcus faecalis, Enterococcus faecium, Staphylococcus aureus, Staphylococcus epidermidis, Staphylococcus saprophyticus, Staphylococcus intermedius, Staphylococcus hyicus subsp.hyicus, Staphylococcus haemolyticus, Staphylococcus hominis, or Staphylococcus
saccharolyticus.
[00169] In some embodiments, the infection that is treated or prevented is caused by a bacteria that includes Pseudomonas aeruginosa, Pseudomonas fluorescens, Stenotrophomonas maltophilia, Escherichia coli, Citrobacter freundii, Salmonella typhimurium, Salmonella typhi, Salmonella paratyphi, Salmonella enteritidis, Shigella dysenteriae, Shigella flexneri, Shigella sonnei,
Enterobacter cloacae, Enterobacter aerogenes, Klebsiella pneumoniae, Klebsiella oxytoca, Serratia marcescens, Acinetobacter calcoaceticus, Acinetobacter haemolyticus, Yersinia enterocolitica, Yersinia pestis, Yersinia pseudotuberculosis, Yersinia intermedia, Haemophilus influenzae,
Haemophilus parainfluenzae, Haemophilus haemolyticus, Haemophilus parahaemolyticus,
Helicobacter pylori, Campylobacter fetus, Campylobacter jejuni, Campylobacter coli, Vibrio cholerae, Vibrio parahaemolyticus, Legionella pneumophila, Listeria monocytogenes, Neisseria gonorrhoeae, Neisseria meningitidis, Moraxella catarrhalis, Bacteroides fragilis, Bacteroides vulgatus, Bacteroides ovalus, Bacteroides thetaiotaomicron, Bacteroides uniformis, Bacteroides eggerthii, or Bacteroides splanchnicus.
[00170] In some embodiments, the infection that is treated or prevented is caused by a
enterobacteriaceae bacteria. In some embodiments, the infection that is treated or prevented is caused by a bacteria that includes Escherichia spp, Klebsiella spp., Enterobacter spp., Citrobacter spp., Morganella spp., Proteus spp., Salmonella spp., Serratia spp., Shigella spp., or Yersinia spp.
[00171] In some embodiments, the compounds disclosed herein are useful in the treatment or prevention of infection associated with non-fermenting bacteria. In some embodiments, the compounds disclosed herein are useful in the treatment or prevention of infection associated with non- fermenting gram-negative bacteria. In some embodiments, the non-fermenting gram-negative bacteria is Pseudomonas aeruginosa, Acinetobacter spp. (A. baumannii/ A. calcoaceticus), Stenotrophomonas maltophilia, Elizabethkingia spp (E. meningoseptica/ E. anophelis, Burkholderia cepacia complex, Burkholderia pseudomallei,or Burkholderia mallei.
[00172] In some embodiments, the infection that is treated or prevented is turberculosis. In some embodiments, the infection that is treated or prevented is caused by Mycobacterium tuberculosis. In some embodiments, the infection that is treated or prevented is caused by a bacteria that is a non-TB mycobacterial species. In some embodiments, the non-TB mycobacterial species is M. abscessus, M. canum, M. bovis, M. africanum, or M. caprae.
[00173] In some embodiments, the infection that is treated or prevented is gonorrhea. In some embodiments, the infection that is treated or prevented is caused by Neisseria gonorrhoeae.
[00174] In some embodiments, the infection that is treated or prevented is meningitis and other forms of meningococcal disease such as meningococcemia. In some embodiments, the infection that is treated or prevented is caused by Neisseria meningitidis. [00175] In some embodiments of the methods described herein, the compound described herein is not administered with a b-lactam antibiotic. In some embodiments of the methods described herein, the compound described herein is not administered with a b-lactamase inhibitor. In some
embodiments of the methods described herein, the compound described herein is not administered with a combination of a b-lactam antibiotic and a b-lactamase inhibitor. EXAMPLES
General Examples for the Preparation of Compounds of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1)
[00176] The starting materials and intermediates for the compounds of this invention may be prepared by the application or adaptation of the methods described below, their obvious chemical equivalents, or, for example, as described in literature such as The Science of Synthesis, Volumes 1-8. Editors E. M. Carreira et al. Thieme publishers (2001-2008). The use of protective groups may be as described in methodology compendia such as Greene's Protective Groups in Organic Synthesis, Fourth Edition. John Wiley & Sons, Inc.2006.
[00177] Certain compounds of Formula I (Scheme 1) are prepared from the corresponding functional-group-protected boronic acid esters A by treatment with a Lewis acid in a solvent such as dichloromethane, at a temperature between -78 °C and 0 °C followed by an aqueous quench.
Figure imgf000065_0001
SCHEME 1
[00178] Amide intermediates A may be prepared according to the route outlined in Scheme 2.
Chloro-boronates B, prepared by methods described previously (e.g. see WO2014089365), is reacted with silylamine bases such as lithium hexamethyldisilazide, and the intermediate silylamine is treated with carboxylic acids C under amide coupling conditions (such as with carbodiimide dehydrating reagents, HATU, or other coupling reagents) to provide protected amides A. Alternatively, the above silyamine intermediate is allowed to react with acid chlorides to provide A. Carboxylic acids (C) or acid chlorides (D) may be obtained from commercial sources, prepared according to known methods in the literature, or prepared by a number of different reaction sequences. Formation of the acid chloride (D) involves treatment of (C) with a chlorinating agent such as thionyl chloride, phosphorous pentachloride or oxalyl chloride, in a solvent such as dichloromethane, in the presence of a catalyst such as DMF, at around room temperature. In certain cases, DMF is also used as a co-solvent.
Formation of the anhydride (E) involves treatment of (C) with a sterically hindered acid chloride or chloroformate, such as trimethylacetyl chloride or isopropylchloroformate, in an inert solvent such as dichloromethane, in the presence of a non-nucleophilic base, such as triethyl amine or diisopropylamine at room temperature or below. Formation of the activated ester (F) involves treatment of (C) with an activating reagent system such as EDCI, DCC/HOBt, HATU, BOP reagents or TBTU, in a solvent such as DMF, DMA, NMP or dichloromethane at room temperature or below
Figure imgf000066_0001
SCHEME 3
[00179] Chloroboronates B may be prepared from aryl halides or aryl triflates K (X=Br, I or OTf) in the manner described in Scheme 3. Compounds K (X=Br, I or OTf) may be converted into boronic acids L by treatment with alkyl lithium reagents, for example n-butyllithium, and then quenching the intermediate aryllithium species with trialkylboronates, followed by aqueous work-up. The boronic acids L may be converted into protected boronate esters M by treatment with 1,2-diols, such as (+)- pinanediol or pinacol. Alternatively, aryl halides K may be converted to boronate esters M by transition-metal-catalyzed reaction with diboron compounds, for example bis[(+)- pinanediolato]diboron and palladium catalysts. Two sequential Matteson reactions, as described previously, provide chloroboronates B bearing a wide range of substituents Ra, Rb, and Rc. Another variant consists of reaction of K with chloromethyl boronate J and isopropylmagnesium chloride to provide desired intermediate N directly.
[00180] While there are common themes and strategies among the illustrative examples cited below, the selection of an appropriate reaction sequence (including protecting group requirements) is dictated by the nature and arrangement of the functionality present in the target molecule and, therefore, may involve obvious adaptations of the illustrated methods in order to be applied in a particular case. General Method A: Deprotection with boron trichloride or boron tribromide
Figure imgf000067_0001
[00181] To a solution of the protected precursor A (0.4 mmol) in anhydrous DCM (15 mL) at -78 °C under argon was added dropwise BCl3 or BBr3 (1.0 M in DCM, 2.4-4 mL, 2.4-4 mmol, 6-10 equiv). The reaction mixture was allowed to slowly warmed to 0 °C over 1 h, and stirred between 0-5 °C for an additional 1-2 h, then quenched with water (2 mL) and methanol (20 mL), evaporated to remove DCM, washed with hexane, and concentrated to a volume of ~ 4-5 mL. The crude product was purified by reverse phase preparative HPLC and dried using lyophilization to afford the product I.
General Method B: Deprotection with aluminum chloride
Figure imgf000067_0002
[00182] To a solution of the protected precursor A (0.4 mmol) in anhydrous DCM (15 mL) was added AlCl3 (535 mg, 4 mmol, 10 equiv) in one portion at RT. The reaction mixture was stirred at RT for 24h, then quenched with water (2 mL) and methanol (20 mL), evaporated to remove DCM, and washed with hexane, and concentrated to a volume of ~ 4-5 mL. The crude product was purified by reverse phase preparative HPLC and dried using lyophilization to afford the product I. General Method C: Conversion of chloro-boronates to amides
Figure imgf000068_0001
[00183] To a solution of the chloride B (4 mmol) in anhydrous THF (16 mL) was added dropwise LiHMDS (1.0 M in THF, 4.5 mL, 4.5 mmol) at -60°C under argon. The reaction mixture was allowed to slowly warmed to 0 °C over 45 min, and stirred at RT for an additional 2 h.
[00184] In a separate flask was charged the carboxylic acid C (4.2 mmol) and anhydrous DMA (20 mL), to this mixture was added HATU (1.68 g, 4.4 mmol) followed by NMM (0.49 mL, 4.4 mmol). The reaction mixture was stirred at RT for 2 h, at which time the solution from the above reaction was added to the flask, and the reaction mixture was stirred at RT overnight, then diluted with EtOAc, washed with water, brine, and dried over Na2SO4, concentrated in vacuo to afford the crude product, which was purified by flash chromatography on silica gel (hexane-EtOAc, 20:1-1:1, or hexane- acetone, 10:1-1:1, or DCM-MeOH, 30:1-10:1) to afford the product A. Synthetic Examples
EXAMPLE 1: (R)-3-((R)-2-amino-2-phenylacetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000068_0002
EXAMPLE 2: (R)-3-((S)-2-amino-2-phenylacetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000068_0003
Figure imgf000069_0001
[00185] By following General Method C, the chloride was treated with LiHMDS, and then coupled with Boc-D-a-phenylglycine in the presence of HATU and NMM to yield two products after purification by flash chromatography on silica gel (hexane-Et2O, 4:1-1:2), which were tentatively assigned as the two diasteromers (Boc-D-a-phenylglycine racemized during the reaction). ESI-MS m/z 663 (MH)+.
[00186] These two products were treated with BCl3 to afford the two title compounds (1 and 2). ESI-MS m/z 341 (MH)+.
EXAMPLE 3: (R)-3-((R)-2-amino-2-(2-aminothiazol-4-yl)acetamido)-2-hydroxy-3,4-dihydro- 2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000069_0002
EXAMPLE 4: (R)-3-((S)-2-amino-2-(2-aminothiazol-4-yl)acetamido)-2-hydroxy-3,4-dihydro- 2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000069_0003
Step 1. Synthesis of ethyl 2-(2-aminothiazol-4-yl)-2-((tert-butoxycarbonyl)amino)acetate.
Figure imgf000069_0004
[00187] To ethyl 2-amino-a-(hydroxyimino)-4-thiazoleacetate (4.4 g, 20 mmol) in 50% HCOOH (40 mL) and MeOH (20 mL) was added zinc dust (3 g, 46 mmol) at 0oC. The reaction mixture was stirred 0 °C for 3 h, filtered through a pad of Celite, the filtrate was concentrated. To this concentrated mixture was added water (80 mL), basified with K2CO3 to pH ~8-9, then THF (100 mL) was added to the resulting solution followed by Boc2O (5.24 g, 24 mmol). The reaction was stirred at 0 °C for 1 h, then warmed to RT, added more Boc2O (1.9 g, 8.7 mmol), stirred for an additional 1 h 40 min, extracted with EtOAc. The organic extracts were dried over Na2SO4, and concentrated. The crude product was purified by flash chromatography on silica gel (hexane-EtOAc, 10:1-1:3) to afford the title compound, 4.5 g. ESI-MS m/z 302 (MH)+.
Step 2. Synthesis of ethyl 2-((tert-butoxycarbonyl)amino)-2-(2-((tert- butoxycarbonyl)amino)thiazol-4-yl)acetate.
Figure imgf000070_0001
[00188] The above product (2.3 g, 7.64 mmol) was dissolved in CH3CN (50 mL), reacted with Boc2O (1.9 g, 8.7 mmol) in the presence of TMEDA (3.6 mL, 24 mmol) at RT overnight, then concentrated, and purified by flash chromatography on silica gel (hexane-EtOAc, 10:1-3:2) to afford the title compound, 1.46 g. ESI-MS m/z 402 (MH)+.
Step 3. Synthesis of 2-((tert-butoxycarbonyl)amino)-2-(2-((tert-butoxycarbonyl)amino)thiazol-4- yl)acetic acid.
Figure imgf000070_0002
[00189] The above product (1.43 g, 3.57 mmol) was dissolved in THF (20 mL) and water (20 mL), treated with LiOH.H2O (420 mg, 10 mmol) at RT for 2 h, concentrated, acidified with 1 N HCl to pH ~3-4, the solid was collected by filtration, dried in vacuo to afford the title compound, 1.3 g. ESI-MS m/z 374 (MH)+.
Step 4. Synthesis of (R)-3-((R)-2-amino-2-(2-aminothiazol-4-yl)acetamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid and (R)-3-((S)-2-amino-2-(2- aminothiazol-4-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00190] In a similar manner to the synthesis of Example 1 and Example 2, Example 3 and Example 4 were prepared from the above acid. MS m/z 363 (MH)+.
EXAMPLE 5: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000070_0003
Step 1. Synthesis of ethyl 2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-((tert- butoxycarbonyl)amino)acetate.
Figure imgf000071_0001
[00191] By following standard proceduresfor CBZ protection of an amine, the title compound was prepared from ethyl 2-(2-aminothiazol-4-yl)-2-((tert-butoxycarbonyl)amino)acetate (from Step 1 of Example 3, Example 4). ESI-MS m/z 436 (MH)+.
Step 2. Synthesis of 2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-((tert- butoxycarbonyl)amino)acetic acid.
Figure imgf000071_0002
[00192] The above product (6.53 g, 15 mmol) in THF (100 mL) and water (100 mL) was treated with lithium hydroxide monohydrate (1.89 g, 45 mmol) at RT for 2 h, then concentrated in vacuo, acidified with 1 N HCl to pH ~ 3-4. The precipitated solid was collected by filtration, washed with water, and dried in vacuo to afford the title compound, 5.8 g. ESI-MS m/z 408 (MH)+.
Step 3. Synthesis of 2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)acetic acid.
Figure imgf000071_0003
[00193] To a solution of the above product (5.8 g, 14.25 mmol) in DCM (120 mL) was added 4.0 M HCl in dioxane solution (60 mL, 240 mmol). The reaction mixture was stirred at RT overnight, diluted with diethyl ether. The precipitated solid was collected by filtration, washed with diethyl ether, and dried in vacuo to afford the title compound as the HCl salt, 4.86 g. ESI-MS m/z 308 (MH)+. Step 4. Synthesis of 2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetic acid.
Figure imgf000071_0004
[00194] To a solution of the above amino acid (2.06 g, 6 mmol) in THF (60 mL) and water (60 mL) was added a solution of NaOH (480 mg, 12 mmol) in water (5 mL) at 0 oC, followed by aqueous saturated NaHCO3 (20 mL), a solution of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride (1.54 g, 7.5 mmol) in THF (8 mL), and MeOH (160 mL). The reaction mixture was stirred between 0 - 10 °C for 1.5 h, then concentrated in vacuo, acidified with 1 N HCl to pH ~ 2, extracted with EtOAc. The organic extracts were combined, dried over Na2SO4, concentrated in vacuo to afford the crude product, 2.3 g, which was used directly for the next Step without further purification. ESI-MS m/z 476 (MH)+.
Step 5. Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000072_0001
[00195] The title compound was prepared from the above acid by following the General Method C and General Method A. ESI-MS m/z 531 (MH)+.
EXAMPLE 6: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(3-ethylureido)acetamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000072_0002
Step 1. Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-((tert- butoxycarbonyl)amino)acetamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000072_0003
[00196] By following the general procedure C, the chloride (prepared as previous reported, WO 2014/089365) was treated with LiHMDS, and then coupled with 2-(2- (((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-((tert-butoxycarbonyl)amino)acetic acid (from step 2 of Example 5) in the presence of HATU and NMM, yielding the title compound. ESI-MS m/z 819 (MH)+. Step 2. Synthesis of tert-butyl 3-((2R)-2-(2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4- yl)acetamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol- 2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000073_0001
[00197] To above product (3 g, 3.66 mmol) was added cold solution of 1.0 M HCl in diethyl ether (100 mL, 100 mmol). The reaction mixture was stirred at RT overnight, and concentrated in vacuo, the residue was washed with hexane, dried in vacuo to afford the title compound as the HCl salt, which was used directly for the next step without further purification. ESI-MS m/z 719 (MH)+.
Step 3. Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(3- ethylureido)acetamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000073_0002
[00198] To above product (604 mg, 0.8 mmol) at 0 °C was added diisopropylethylamine (0.21 mL, 1.2 mmol) followed by a DCM (1 mL) solution of ethyl isocyanate (71 mg, 1 mmol). The reaction mixture was allowed to warm up to RT over 1.5 h, washed with water and brine, dried over Na2SO4, concentrated, and purified by flash chromatography on silica gel (hexane-acetone, 2:1-1:3) to yield the product, 270mg. ESI-MS m/z 790 (MH)+.
Step 4. Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(3-ethylureido)acetamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000073_0003
[00199] By following the General Method A, the above product was treated with BCl3 to afford the title compound. ESI-MS m/z 434 (MH)+. EXAMPLE 7: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(3-ethylureido)acetamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000074_0001
Step 1. Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2- (pyridine-3-sulfonamido)acetamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000074_0002
[00200] To the amine intermediate (product from step 2 of Example 6) (604 mg, 0.8 mmol) at 0 °C was added diisopropylethylamine (0.37 mL, 2.1 mmol) followed by a DCM (1 mL) solution of pyridine-3-sulfonyl chloride (178 mg, 1 mmol). The reaction mixture was allowed to warm up to RT over 1.5 h, washed with water and brine, dried over Na2SO4, concentrated, and purified by flash chromatography on silica gel (hexane-acetone, 4:1-2:3) to yield the product, 260mg. ESI-MS m/z 860 (MH)+.
Step 2. Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(pyridine-3-sulfonamido)acetamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000074_0003
[00201] By following the General Method A, the above product was treated with BCl3 to afford the title compound. ESI-MS m/z 504 (MH)+. EXAMPLE 8: (R)-3-((S)-2-(4-Ethyl-2,3-dioxopiperazine-1-carboxamido)propanamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000075_0001
Step 1. Synthesis of (4-Ethyl-2,3-dioxopiperazine-1-carbonyl)-L-alanine.
[00202] To a stirred solution of L-alanine (178 mg, 2.0 mmol) in a mixture (40 mL) of
tetrahydrofuran (THF) and water (1:1, v/v) was added a saturated solution of sodium bicarbonate in water (6 mL) at 0 oC.4-Ethyl-2,3-dioxopiperazine-1-carbonyl chloride (512 mg, 2.5 mmol, 1.25 eq.) in THF (3 mL) was added dropwise, and the reaction was stirred at 0 °C for 2h. The volatiles were evaporated under reduced pressure and the resulting aqueous solution was neutralized at 0 °C with 2N HCl to pH 2, and extracted 3 times with ethyl acetate (50 mL each). The combined organic extracts were dried on Na2SO4, then filtered, and the solvent was evaporated under reduced pressure to generate (4-ethyl-2,3-dioxopiperazine-1-carbonyl)-L-alanine (380 mg), which was used in the next step without further purification.
Step 2. Synthesis of tert-Butyl 3-((2R)-2-((S)-2-(4-Ethyl-2,3-dioxopiperazine-1-carboxamido)- propanamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Step 2a.
[00203] A solution of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (450 mg, 1.0 mmol) in THF (5 mL), stirred at -40 °C under an atmosphere of argon, was treated dropwise with a 1M solution of lithium bis(trimethylsilyl)amide (LHMDS) in THF (1 mL, 1 mmol, 1 eq.). After 5 min the reaction was allowed to warm to room temperature and was stirred for 1h.
Step 2b.
[00204] In a separate flask, (4-ethyl-2,3-dioxopiperazine-1-carbonyl)-L-alanine (283 mg, 1.1 mmol, 1.1 eq.), prepared as described in Step 1, in N,N-dimethylacetamide (DMA) (3 mL) was treated with 1-[bis(dimethylamino)methylene]-1H-1,2,3-triazolo[4,5-b]pyridinium 3-oxid hexafluorophosphate (HATU; 456.5 mg, 1.2 mmol, 1.2 eq) and 4-methylmorpholine (NMM; 0.15 mL, 1.3 mmol, 1.3 eq). The reaction mixture generated in Step 2(a) was added and stirring was continued for 12 h. The reaction mixture was diluted with water (20 mL) and extracted three times with diethyl ether (30 ml each). The combined organic extracts were dried on Na2SO4, then filtered, and the solvent was evaporated under reduced pressure. The product was isolated by flash-chromatography (Silica gel, ethyl acetate - hexanes, 0 - 100%): tert-butyl 3-((2R)-2-((S)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (322 mg).
Step 3. (R)-3-((S)-2-(4-Ethyl-2,3-dioxopiperazine-1-carboxamido)propanamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00205] To a stirred solution of tert-butyl 3-((2R)-2-((S)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (321 mg, 0.5 mmol) in dichloromethane (5 mL) was added dropwise a 1 M solution of boron trichloride (2.5 mL, 2.5 mmol, 5 eq.) at -78 oC. The reaction mixture was allowed to warm to 0 °C and was stirred at this temperature for 1h. The reaction was quenched by addition of water (1.5 mL) and the resulting mixture was stirred for another 20 min. Dicholoromethane was evaporated under reduced pressure. The remaining aqueous residue was washed with diethyl ether, then homogenized by addition of acetonitrile and submitted to preparative reverse phase high performance liquid chromatography (Gilson, C18 stationary phase, acetonitrile/water 0-60% mobile phase modified with 0.1% TFA). Fractions containing the desired product were combined and freeze-dried to afford the title compound (38 mg). ESI-MS m/z 447.2 (M+H)+.
EXAMPLE 9: (R)-3-((2R,4S)-1-(4-ethyl-2,3-dioxopiperazine-1-carbonyl)-4-hydroxypyrrolidine- 2-carboxamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000076_0001
[00206] The title compound was prepared from trans-4-hydroxy-D-proline and 3-((2S)-2-chloro-2- ((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 489.2 (M+H)+.
EXAMPLE 10: (3R)-3-(2-(5-amino-1,2,4-thiadiazol-3-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000076_0002
Step 1. Synthesis of methyl 2-(5-amino-1,2,4-thiadiazol-3-yl)-2-(methoxyimino)acetate.
Figure imgf000077_0001
[00207] (Z)-2-(5-Amino-1,2,4-thiadiazol-3-yl)-2-(methoxyimino)acetic acid (9.1 g, 45 mmol) was dissolved in 3 M HCl in methanol (150 mL), heated at 60 °C for 8 h, then at 45-50 °C overnight. The reaction mixture was concentrated in vacuo, dissolved in DCM, washed with aqueous saturated NaHCO3, dried over Na2SO4, and concentrated in vacuo to afford the product as a mixture of E and Z isomers, 8.5 g. ESI-MS m/z 217 (MH)+.
Step 2. Synthesis of 2-(5-(((benzyloxy)carbonyl)amino)-1,2,4-thiadiazol-3-yl)-2-((tert- butoxycarbonyl)amino)acetic acid.
Figure imgf000077_0002
[00208] By following the same experimental procedurs of Step 1 of Example 3, Example 4, and Step 1, Step 2 of Example 5, the title compound was prepared from the above product. ESI-MS m/z 409 (MH)+.
Step 3. Synthesis of tert-butyl 3-((2R)-2-(2-amino-2-(5-(((benzyloxy)carbonyl)amino)-1,2,4- thiadiazol-3-yl)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000077_0003
[00209] By following the same experimental procedurs of Step 1, Step 2 of Example 6, the title compound was prepared from the above product as HCl salt. ESI-MS m/z 719 (MH)+.
Step 4. Synthesis of (3R)-3-(2-(5-amino-1,2,4-thiadiazol-3-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000078_0001
[00210] In a similar manner to the synthesis of Example 7, utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride in Step 1, the title compound was prepared from the above amine intermediate. ESI-MS m/z 532 (MH)+.
EXAMPLE 11: (R)-3-((R)-3-amino-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000078_0002
[00211] The title compound was prepared from (R)-2-amino-3-((tert- butoxycarbonyl)amino)propanoic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 462.2 (M+H)+.
EXAMPLE 12: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4-hydroxy-2- methylbutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000078_0003
Step 1. Synthesis of 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- methylbutanoic acid.
Step 1a. Synthesis of methyl 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- methylbutanoate.
[00212] To neat methyl 2-amino-4-(benzyloxy)-2-methylbutanoate (1g, 4 mmol) stirred at 0 °C was added dropwise trimethylamine (3 mL, 21 mmol). To the resulting mixture was added dropwise a solution of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride (1g, 5 mmol) in minimum volume of dichloromethane and stirring was continued at room temperature overnight. The reaction mixture was partitioned between water and dichloromethane and the organic layer was separated, washed twice with water, twice with 0.5 N HCl, and then with brine, dried over sodium sulfate and filtered. The volatiles were evaporated under reduced pressure to afford methyl 4-(benzyloxy)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)-2-methylbutanoate as a viscous oil, which was used in the next step without further purification.
Step 1b. Synthesis of 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- methylbutanoic acid.
[00213] Methyl 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-methylbutanoate (405.2 mg, 1 mmol) in a 1:1 (v/v) tetrahydrofuran/water mixture (10 mL) was stirred at room temperature with LiOH (72 mg, 3 mmol) for 30 min. Volatiles were evaporated under reduced pressure, pH was adjusted to 2-3 with HCl 2N, and the product was extracted with ethyl acetate, and further purified by flash chromatography (Silicagel, methanol/dichloromethane 0 - 20% gradient) to provide 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-methylbutanoic acid (249.2 mg; 64% yield; ESI-MS m/z 392.2 (M+H)+ / 414.2 (M+Na)+.
Figure imgf000079_0001
Step 2. Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4-hydroxy-2- methylbutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00214] The title compound was prepared from 4-(benzyloxy)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)-2-methylbutanoic acid from Example 61, Step 1, and 3-((2S)-2-chloro-2-((3aS,4S,6S)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 491.2 (M+H)+.
EXAMPLE 13: (3R)-3-(2-(2-amino-5-chlorothiazol-4-yl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000079_0002
Step 1. Synthesis of 1-(2-fluoroethyl)piperazine-2,3-dione.
Figure imgf000080_0001
[00215] To ethylenediamine (22.5 g, 375 mmol) was added 1-bromo-2-fluoroethane (6.86 g, 54 mmol) in portions over 20 min, stirred for an additional 3.5 h. To the reaction mixture was added diethyl ether (40 mL), the ether layer was separated, and the residue was extracted one more time with diethyl ether (40 mL). The ether extracts were combined, concentrated and dried in vacuo. To the EtOH (35 mL) solution of this crude product (3.0 g, 28.3 mmol) was added diethyl oxalate (3.94 mL, 29 mmol). The reaction mixture was stirred at reflux for 18 h, then concentrated in vacuo, the residue was purified by flash chromatography on silica gel (DCM-MeOH, 30:1-10:1) to afford the product, 3.1 g. ESI-MS m/z 161 (M+H)+.
Step 2. Synthesis of 2,3-dioxo-4-fluoroethylpiperazine-1-carbonyl chloride.
Figure imgf000080_0002
[00216] To the above product (1.6 g, 10 mmol) in THF (25 mL) and DCM (10 mL) at -15 oC was added chlorotrimethylsilane (1.4 mL, 11 mmol), followed by triethylamine (1.67 mL, 12 mmol). The reaction mixture was stirred between -15 oC-0 oC for 1 h, then triphosgene (1.2 g, 4 mmol) in THF (6 mL) was added dropwise to the reaction mixture. After addition was complete, the reaction mixture was warmed up to RT over 30 min, stirred for an additional 1 h, and the solid was filtered off and washed with THF. The filtrate was concentrated, triturated with diethyl ether and hexane. The solid was collected by filtration, dried in vacuo to give the title compound, 2.77 g.
Step 3. Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4-(2- fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000081_0001
[00217] To the amine intermediate (product from Step 2 of Example 6) (1.36 g, 1.8 mmol) at 0 °C was added diisopropylethylamine (1.12 mL, 6.6 mmol) followed by the carbonyl chloride from Step 2 (748 mg, 2.7 mmol). The reaction mixture was allowed to warm up to RT over 2.5 h, washed with water and brine, dried over Na2SO4, concentrated, and purified by flash chromatography on silica gel (hexane-acetone, 4:1-1:4) to yield the product, 700 mg. ESI-MS m/z 905 (M+H)+.
Step 4. Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)-5-chlorothiazol-4- yl)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate.
Figure imgf000081_0002
[00218] The product from Step 3 (460 mg, 0.51 mmol) in DMF ( 3 mL) was treated with NCS (88 mg, 0.66 mmol) at RT for 2 h, diluted with EtOAc, washed with water, brine, dried over Na2SO4, concentrated, and purified by flash chromatography on silica gel (hexane-acetone, 4:1-1:1) to afford the title compound, 330 mg. ESI-MS m/z 939/941 (MH/MH+2)+. Step 5. Synthesis of (3R)-3-(2-(2-amino-5-chlorothiazol-4-yl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000082_0001
[00219] The title compound was prepared by treatment of the above product with BCl3 by following General Method A. ESI-MS m/z 583/585 (MH/MH+2)+.
[00220]
EXAMPLE 14: (R)-3-(3-(aminomethyl)-1-(4-ethyl-2,3-dioxopiperazine-1-carbonyl)azetidine-3- carboxamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000082_0002
[00221] The title compound was prepared from 3-(((tert-butoxycarbonyl)amino)methyl)azetidine-3- carboxylic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo- [d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 488.2 (M+H)+.
EXAMPLE 15: (3R)-3-(3-amino-2-((4-ethyl-2,3-dioxopiperazine-1-carboxamido)methyl)-2- (hydroxymethyl)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid, trifluoroacetic acid salt
Figure imgf000082_0003
[00222] The title compound was isolated as a side product from Example 14, Step 3. ESI-MS m/z 506.2 (M+H)+. EXAMPLE 16: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-6-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000083_0001
Step 1. Synthesis of tert-butyl 5-fluoro-2-hydroxybenzoate.
Figure imgf000083_0002
[00223] 5-Fluorosalicylic acid (10.5 g, 66.9 mmol) in THF (110 mL) under Ar was heated to reflux. N,N-Dimethylformamide di-tert-butyl acetal (50.0 mL, 208 mmol) was added through the condenser in three portions every 30 min. The reaction mixture was stirred at reflux for an additional 23 h. The reaction was diluted with water and extracted two times with DCM. The combined organic layers were washed with water and brine, dried over Na2SO4, filtered, and concentrated. Column
chromatography (0-70% DCM/Hexane) afforded the title compound (10.1 g, 71%). ESI-MS m/z 213 (MH)+.
Step 2. Synthesis of tert-butyl 5-fluoro-2-hydroxy-3-iodobenzoate.
Figure imgf000083_0003
[00224] To a solution of tert-butyl 5-fluoro-2-hydroxybenzoate (10.1 g, 47.6 mmol) in DMF (86 mL) under Ar was added N-iodosuccinimide (13.4 g, 59.5 mmol). The reaction was stirred at room temperature for 5 days. The reaction was quenched with water and extracted two times with diethyl ether. The combined organic layers were washed with water and brine, dried over MgSO4, filtered, and concentrated. Column chromatography (0-70% DCM/Hexane) afforded the title compound (7.15 g, 44%). ESI-MS m/z 339 (MH)+.
Step 3. Synthesis of tert-butyl 5-fluoro-3-iodo-2-methoxybenzoate.
Figure imgf000083_0004
[00225] To a solution of tert-butyl 5-fluoro-2-hydroxy-3-iodobenzoate (7.15 g, 21.1 mmol) in DMF (57 mL) under Ar was added cesium carbonate (15.1 g, 46.4 mmol) and the reaction was stirred for 20 min. Iodomethane (3.2 mL, 51.4 mmol) was added and the reaction was stirred at room temperature for 18 h. The reaction was quenched with water and extracted two times with diethyl ether. The combined organic layers were washed with water and brine, dried over MgSO4, filtered, and concentrated. Column chromatography (0-100% DCM/Hexane) afforded the title compound (4.44 g, 60%). ESI-MS m/z 353 (MH)+.
Step 4. Synthesis of tert-butyl 5-fluoro-2-methoxy-3-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate.
Figure imgf000084_0001
[00226] To a solution of tert-butyl 5-fluoro-3-iodo-2-methoxybenzoate (4.44 g, 12.6 mmol) in methanol (64 mL) and ethylene glycol (6.5 mL) under Ar was added tetrahydroxydiboron (1.36 g, 15.2 mmol). The reaction was evacuated and purged with Ar three times and stirred for 15 min. Cesium carbonate (5.94 g, 18.2 mmol) was added in two portions one minute apart and the reaction was stirred at room temperature for 5 min. Palladium acetate (0.059 g, 0.26 mmol) and s-Sphos (0.23 g, 0.45 mmol) were added and reaction was again evacuated and purged with Ar four times and stirred for 3.5 h. The reaction was concentrated, diluted with ethyl acetate, and washed with 1N HCl and brine. The aqueous layers were back extracted and the combined organic layers were dried over MgSO4, filtered, and concentrated. Column chromatography (0-100% Ethyl Acetate/Hexane) afforded the boronic acid which was dissolved in THF (10 mL) and toluene (5 mL) under Ar. (+)-Pinanediol was added and the reaction was stirred at room temperature for 16 h. The reaction was concentrated and azeotroped with toluene to produce the title compound (3.38 g, 66%). ESI-MS m/z 405 (MH)+. Step 5. Synthesis of tert-butyl 5-fluoro-2-methoxy-3-(((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)methyl)benzoate.
Figure imgf000084_0002
[00227] A solution of chloroiodomethane (3.1 mL, 42.6 mmol) in THF (28 mL) under Ar was cooled to -78oC. Isopropylmagnesium chloride lithium chloride complex (1.3 M in THF, 16 mL, 12.3 mmol) was added dropwise over 35 min. The reaction mixture was stirred at -78 °C for 50 min. tert- Butyl 5-fluoro-2-methoxy-3-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate (3.38 g, 8.36 mmol) in THF (6 mL) was added dropwise over 30 min and the reaction was stirred at -78 °C for 2 h. Zinc chloride (1.0 M in Et2O, 14 mL, 14.0 mmol) was added dropwise over 30 min. The reaction was stirred at -78 °C for 20 min then warmed to room temperature for 18 h. The reaction was diluted with diethyl ether and washed with cold 0.1 N HCl. The aqueous layer was back extracted and the combined organic layers were washed with water and brine, dried over MgSO4, filtered, and concentrated. Column chromatography (0-20% Ethyl Acetate/Hexane) afforded the title compound (1.34 g, 38%). ESI-MS m/z 419 (MH)+.
Step 6. Synthesis of tert-butyl 3-((2S)-2-chloro-2-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5-fluoro-2-methoxybenzoate.
Figure imgf000085_0001
[00228] A solution of DCM (0.52 mL, 8.12 mmol) in THF (5.8 mL) under Ar was cooled to -100oC. n-Butyllithium (2.5 M in hexane, 2.5 mL, 6.25 mmol) was added dropwise down the side of the flask over 14 min. The milky white reaction mixture was stirred at -100 °C for 30 min. tert-Butyl 5-fluoro- 2-methoxy-3-(((3aS)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl)methyl)benzoate (1.34 g, 3.2 mmol) in THF (2.5 mL) was added dropwise down the side of the flask over 10 min and the reaction was stirred for 60 min at -100oC. Zinc chloride (1.0 M in Et2O, 14 mL, 14.0 mmol) was added dropwise down the side of the flask over 11 min. The reaction was stirred at -100 °C for 5 min then warmed to -10 °C for 80 min. The reaction was diluted with diethyl ether and washed with cold 0.05 N HCl and brine, dried over MgSO4, filtered, and concentrated. Column chromatography (0-20% Ethyl Acetate/Hexane) afforded the title compound (0.74 g, 49%). ESI-MS m/z 467 (MH)+.
Step 7. Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4- ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5-fluoro-2-methoxybenzoate.
Figure imgf000085_0002
[00229] A solution of tert-butyl 3-((2S)-2-chloro-2-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5-fluoro-2-methoxybenzoate (0.74 g, 1.57 mmol) in THF (4.0 mL) under Ar was cooled to -25oC. Lithium bis(trimethylsilyl)amide (1.0 M in THF, 1.7 mL, 1.70 mmol) was added dropwise and upon complete addition, the reaction was warmed to room temperature and stirred for 1 h. In a separate flask, HATU (0.63 g, 1.66 mmol) and N- methylmorpholine (0.20 mL, 1.82 mmol) were added to a solution of 2-(2- (((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)acetic acid (Example 5, Steps 1-4) (0.72 g, 1.51 mmol) in N,N-dimethylacetamide (4.0 mL) and the reaction stirred at room temperature for 85 min. To this solution was added the original reaction mixture and the resulting reaction mixture was stirred at room temperature for 17.5 h. The reaction was quenched with water and extracted two times with ethyl ether. The combined organic layers were washed with brine, dried over MgSO4, filtered, and concentrated. Column chromatography (5-100% Ethyl Acetate/Hexane) afforded the title compound (0.26 g, 19%). ESI-MS m/z 905 (MH)+.
Step 8. Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-6-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000086_0001
[00230] The title compound was prepared by treatment of the above product with BCl3 by following General Method A. ESI-MS m/z 549 (MH)+.
EXAMPLE 17: (R)-3-((R)-4-amino-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)butanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000086_0002
[00231] The title compound was prepared from (R)-2-amino-4-((tert- butoxycarbonyl)amino)butanoic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 476.2 (M+H)+. EXAMPLE 18: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-3-oxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000087_0001
Step 1. Synthesis of 4-ethyl-3-oxopiperazine-1-carboxylic acid.
Figure imgf000087_0003
[00232] To a solution of 1-ethylpiperazin-2-one (1.08 g, 8.43 mmol) in DCM (38 mL) under Ar was added triethylamine (5.9 mL, 42.3 mmol) and methyl chloroformate (2.0 mL, 25.9 mmol). The reaction mixture was stirred at room temperature for 18 h. The reaction mixture was concentrated then redissolved in methanol (20 mL) and water (20 mL). Lithium hydroxide (1.33 g, 31.6 mmol) was added and the reaction was stirred at room temperature for 43 h. The reaction was concentrated and extracted one time with hexane. The aqueous layer was acidified to pH ~2-3 with 1N HCl and extracted three times with ethyl acetate. Combined organic layers were dried over MgSO4, filtered, and concentrated to afford the title compound (0.22 g, 15%).
Step 2. Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4- ethyl-3-oxopiperazine-1-carboxamido)acetamido)-2-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000087_0002
[00233] To a suspension of 4-ethyl-3-oxopiperazine-1-carboxylic acid (0.10 g, 0.60 mmol) in DCM (4 mL) under Ar was added HATU (0.25 g, 0.67 mmol) and N-Methylmorpholine (0.07 mL, 0.64 mmol) and the reaction mixture was stirred at room temperature for 75 min. A solution of tert-butyl 3- ((2R)-2-(2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)acetamido)-2-((3aS,4S,6R)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (Example 6, Steps 1-2) (0.20 g, 0.27 mmol), N-methylmorpholine (0.10 mL, 0.91 mmol), and DCM (2 mL) was added and the reaction stirred at room temperature for 21 h. The reaction was diluted with water and extracted three times with ethyl acetate. The combined organic layers were washed with brine, dried over MgSO4, filtered, and concentrated. Column chromatography (5-100% Ethyl Acetate/Hexane) afforded the title compound (0.081 g, 35%). ESI-MS m/z 874 (MH)+.
Step 3. Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-3-oxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000088_0001
[00234] tert-Butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4-ethyl-3- oxopiperazine-1-carboxamido)acetamido)-2-((3aS)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (0.081 g, 0.093 mmol) was dissolved in hydrobromic acid (33% in acetic acid, 1.5 mL) under Ar and stirred at room temperature for 21 h. The reaction was diluted with water and purified by preparative HPLC followed by lyophilization to provide the title compound (0.030 g, 62%). ESI-MS m/z 517 (MH)+.
EXAMPLE 19: (R)-3-((S)-2-amino-4-(4-ethyl-2,3-dioxopiperazin-1-yl)-4-oxobutanamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000088_0002
Step 1: Synthesis of benzyl (S)-2-((tert-butoxycarbonyl)amino)-4-(ethyl-2,3-dioxopiperazin-1-yl)- 4-oxobutanoate.
Figure imgf000088_0003
[00235] To Boc-Asp-OBzl 5 g (15.5 mmol) in dichloromethane (50 mL) was added triethylamine 6.43 mL (46.4 mmol), followed by HATU 7 g (18.6 mmol) and the mixture was stirred at RT for 30 min.1-Ethylpiperazine-2,3-dione 2.6 g (18.6 mmol) was added to the reaction in one portion, stirred at RT for 1 h and diluted with dichloromethane. The solution was washed with water/brine, dried over sodium sulfate, concentrated and purified using silica gel chromatography (70-80% ethyl acetate/hexanes) to give the desired compound, 5.64 g. ESI-MS m/z 448 (MH)+.
Step 2: Synthesis of (S)-2-((tert-butoxycarbonyl)amino)-4-(4-ethyl-2,3-dioxopiperzin-1-yl)-4- oxobutanoic acid.
Figure imgf000089_0001
[00236] To benzyl (S)-2-((tert-butoxycarbonyl)amino)-4-(ethyl-2,3-dioxopiperazin-1-yl)-4- oxobutanoate 2.8 g (6.26 mmol) in ethyl acetate (20 mL) was added 10% palladium on carbon under an atmosphere of argon and the reaction was stirred under hydrogen at RT for 18 h. The mixture was filtered through celite, washed with ethyl acetate/methanol, concentrated and dried under high vacuum to give the desired compound, 2.24 g. ESI-MS m/z 358 (MH)+.
Step 3: Synthesis of tert-butyl 3-((2R)-2-((S)-2-((tert-butoxycarbonylamino)-4-(4-ethyl-2,3- dioxopiperazin-1-yl)-4-oxobutanamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000089_0002
[00237] tert-Butyl 3-((2R)-2-((S)-2-((tert-butoxycarbonylamino)-4-(4-ethyl-2,3-dioxopiperazin-1- yl)-4-oxobutanamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate was prepared from the above acid by following the General Method C. ESI-MS m/z 769 (MH)+. Step 4: Synthesis of (R)-3-((S)-2-amino-4-(4-ethyl-2,3-dioxopiperazin-1-yl)-4-oxobutanamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000090_0001
[00238] To tert-butyl 3-((2R)-2-((S)-2-((tert-butoxycarbonylamino)-4-(4-ethyl-2,3-dioxopiperazin- 1-yl)-4-oxobutanamido)-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate 0.397 g (0.52 mmol) was added 33% hydrobromic acid in acetic acid (4 mL) and stirred at RT for 18 h. The reaction was quenched with water and methanol, concentrated to remove organics, purified using reverse phase
chromatography and stirred with water to give the title compound. ESI-MS m/z 447 (MH)+.
EXAMPLE 20: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-6-methyl-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000090_0002
[00239] The title compound was synthesized following the procedures in Example 16, Steps 1-7 and Example 18, Step 3. ESI-MS m/z 545 (MH)+.
EXAMPLE 21: (3R)-3-(2-(3,4-dimethoxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000090_0003
[00240] In a similar manner to the synthesis of Example 5, utilizing 2-amino-2-(3,4- dimethoxyphenyl)acetic acid in place of 2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4- yl)acetic acid in Step 4, and utilizing BCl3 in the final deprotection reaction, the title compound was prepared. ESI-MS m/z 569 (MH)+.
EXAMPLE 22: (3R)-3-(2-(3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000091_0001
[00241] In a similar manner to the synthesis of Example 21, utilizing BBr3 in the final deprotection reaction in place of BCl3, the title compound was prepared. ESI-MS m/z 541 (MH)+.
EXAMPLE 23: (R)-3-((R)-3-carboxy-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000091_0002
[00242] The title compound was prepared from (R)-2-amino-4-(tert-butoxy)-4-oxobutanoic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 491.2 (M+H)+. EXAMPLE 24: (R)-3-((S)-3-carboxy-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000091_0003
[00243] The title compound was isolated from the procedure for Example 23, as the later eluting epimer in reverse phase HPLC. ESI-MS m/z 491.2 (M+H)+. EXAMPLE 25: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(2,3-dihydroxybenzamido)acetamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000092_0001
[00244] In a similar manner to previously described, utilizing 2,3-dimethoxybenzoic acid in place of 2-methoxyisonicotinic acid in Step 1, the title compound was prepared. ESI-MS m/z 499 (MH)+. EXAMPLE 26: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- methoxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000092_0002
[00245] In a similar manner to the synthesis of Example 5, utilizing 2-amino-2-(4- methoxyphenyl)acetic acid in place of 2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)acetic acid in Step 4, and utilizing BCl3 in the final deprotection reaction, the title compound was prepared. ESI-MS m/z 539 (MH)+.
EXAMPLE 27: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- hydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000092_0003
[00246] In a similar manner to the synthesis of Example 26, utilizing BBr3 in the final deprotection reaction in place of BCl3, the title compound was prepared. ESI-MS m/z 525 (MH)+. EXAMPLE 28: (R)-3-((2R,4R)-1-(4-ethyl-2,3-dioxopiperazine-1-carbonyl)-4- hydroxypyrrolidine-2-carboxamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000093_0001
[00247] The title compound was prepared from cis-4-hydroxy-D-proline and 3-((2S)-2-chloro-2- ((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 489.2 (M+H)+.
EXAMPLE 29: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4-hydroxy-3,5- dimethoxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000093_0002
EXAMPLE 30: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3,4,5- trimethoxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000093_0003
[00248] In a similar manner to the synthesis of Example 5, utilizing 2-amino-2-(3,4,5- trimethoxyphenyl)acetic acid in place of 2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4- yl)acetic acid in Step 4, and utilizing BCl3 in the final deprotection reaction, the Example 29 and Example 30 were prepared. Example 29: ESI-MS m/z 585 (MH)+, Example 30: ESI-MS m/z 599 (MH)+. EXAMPLE 31: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3,4,5- trihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000094_0001
[00249] In a similar manner to the synthesis of Example 29, Example 30, utilizing BBr3 in the final deprotection reaction in place of BCl3, the title compound was prepared. ESI-MS m/z 557 (MH)+. EXAMPLE 32: (R)-3-((R)-2-amino-4-(4-ethyl-2,3-dioxopiperazin-1-yl)-4-oxobutanamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000094_0002
[00250] The title compound was prepared according to the method of Example 19, utilizing (R)-4- (benzyloxy)-3-((tert-butoxycarbonyl)amino)-4-oxobutanoic acid in place of Boc-Asp-OBzl in Step 1. ESI-MS m/z 447 (MH)+.
EXAMPLE 33: (3R)-3-(2,3-bis(4-ethyl-2,3-dioxopiperazine-1-carboxamido)propanamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000094_0003
Step 1. Synthesis of tert-butyl 3-((R)-2-((R)-3-((tert-butoxycarbonyl)amino)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)propanamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000095_0001
[00251] The title compound was prepared from (R)-2-amino-3-((tert- butoxycarbonyl)amino)propanoic acid by following Step 4 of Example 5 and the General Method C. ESI-MS m/z 784 (MH)+.
Step 2. Synthesis of tert-butyl 3-((R)-2-((R)-3-amino-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000095_0002
[00252] The above product (7.83 g, 10 mmol) was treated with 1.0 M HCl in diethyl ether (200 mL, 200 mmol) at RT overnight, and concentrated in vacuo, the residue was washed with hexane, dried in vacuo to afford the title compound as the HCl salt, which was used directly for the next step without further purification. ESI-MS m/z 684 (MH)+.
Step 3. Synthesis of (3R)-3-(2,3-bis(4-ethyl-2,3-dioxopiperazine-1-carboxamido)propanamido)- 2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000095_0003
[00253] In a similar manner to the synthesis of Example 7, utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride, the title compound was prepared. ESI-MS m/z 630 (MH)+.
EXAMPLE 34: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6-methoxypyridin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000096_0001
Step 1: Synthesis of ethyl 2-((tert-butoxycarbonyl)amino)-2-(6-methoxypyridin-3-yl)acetate.
Figure imgf000096_0002
[00254] To ethyl 2-(6-methoxypyridin-3-yl)-2-oxoacetate 2 g (9.56 mmol) in methanol (24 mL) at 0 °C was added hydroxylamine hydrochloride 0.86 g (12.4 mmol), followed by pyridine 0.85 mL (10.5 mmol) and the mixture was warmed at RT for 18 h. The reaction was diluted with dichloromethane, washed with 0.5 N HCl, water/brine, dried over sodium sulfate, concentrated and dried under high vacuum to give ethyl-2-(hydroxyimino)-2-(6-methoxypyridin-3-yl)acetate, 1.71 g. ESI-MS m/z 225 (MH)+.
[00255] To ethyl-2-(hydroxyimino)-2-(6-methoxypyridin-3-yl)acetate 1.71 g (7.63 mmol) was added 50% formic acid (15 mL) and methanol (8 mL), followed by zinc 1.15 g (17.6 mmol) at 0 °C and the mixture was stirred at this temperature for 3 h. The reaction was filtered through celite and concentrated to dryness to give ethyl 2-amino-2-(6-methoxypyridin-3-yl)acetate. ESI-MS m/z 211 (MH)+.
[00256] To ethyl 2-amino-2-(6-methoxypyridin-3-yl)acetate 1.6 g (7.62 mmol) was added water (27 mL) and basified with K2CO3 to pH 8-9. Tetrahydrofuran (33 mL) was added to the mixture, followed by di-tert-butyl dicarbonate 2 g (9.14 mmol, 1.2 eq) at 0 °C and was warmed at RT for 2 h. The reaction was diluted with ethyl acetate, washed with water/brine, dried over sodium sulfate and concentrated. The product was purified on silica gel (30% ethyl acetate/hexanes) to give the desired compound, 1.87 g. ESI-MS m/z 311 (MH)+. Step 2: Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6- methoxypyridin-3-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000097_0001
[00257] In a similar manner to the synthesis of Example 7 utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride, the title compound was prepared. ESI-MS m/z 540 (MH)+.
EXAMPLE 35: (3R)-3-(3-(3,4-dihydroxybenzamido)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000097_0002
[00258] In a similar manner to the synthesis of Example 33, utilizing 3,4-dimethoxybenzoyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 598 (MH)+.
EXAMPLE 36: (3R)-3-(3-(2,3-dihydroxybenzamido)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000097_0003
[00259] In a similar manner to the synthesis of Example 33, utilizing 2,3-dimethoxybenzoyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 598 (MH)+. EXAMPLE 37: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000098_0001
Step 1. Synthesis of 2-((tert-butoxycarbonyl)amino)-2-(2-chloro-3,4-dimethoxyphenyl)acetic acid.
Figure imgf000098_0002
Step 1a
[00260] To 2-chloro-3,4-dimethoxybenzaldehyde (6.4 g, 32 mmol) was added 7 N NH3 in methanol (200 mL) at 0 °C followed by TMSCN (5.8 mL, 45.6 mmol). The reaction mixture was stirred at 0 °C for 15 min, then heated at 45 °C for 6.5 h, then concentrated in vacuo.
Step 1b
[00261] The crude product was dissolved in methanol (150 mL) and 4 N HCl in dioxane (150 mL), heated at 50 °C for 3 days, then concemntrated. The residue was dissolved in DCM, washed with aqueous saturated NaHCO3, dried over Na2SO4, and concentrated in vacuo.
Step 1c
[00262] This crude product was dissolved in THF (80 mL), added TEA (5.76 mL, 41 mmol) followed by Boc2O (11.2 g, 51.2 mmol). The reaction mixture was stirred at RT for 2 h, concentrated, and purified by flash chromatography on silica gel (hexane-EtOAc, 10:1-1:1) to afford the title compound, 10.9 g. ESI-MS m/z 382 (M+Na)+.
Step 1d
[00263] This product (10.9 g, 30.4 mmol) in THF (100 mL), MeOH (100 mL) and water (100 mL) was treated with LiOH.H2O (6.39 g, 152 mmol) at RT for 1 h, then concentrated, extracted with Et2O. The aqueous was acidified with 1 N HCl to pH = 2-3, extracted with DCM. The organic extracts were combined, dried over Na2SO4, and concentrated in vacuo, yielding the title compound, 10.3 g. ESI- MS m/z 368 (M+Na)+.
Step 2. Synthesis of tert-butyl 3-((2R)-2-(2-amino-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)- 2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl)ethyl)-2-methoxybenzoate.
Figure imgf000099_0004
[00264] By following the same experimental procedurs of Step 1, Step 2 of Example 6, the title compound was prepared from the above product as HCl salt. ESI-MS m/z 657/659 (MH/MH+2)+. Step 3. Synthesis of (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000099_0001
[00265] In a similar manner to the synthesis of Example 7, utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride in Step 1, the title compound was prepared from the above amine intermediate. ESI-MS m/z 575/577 (MH/MH+2)+.
EXAMPLE 38: (R)-3-((S)-2-(3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000099_0002
EXAMPLE 39: (R)-3-((R)-2-(3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000099_0003
[00266] The title compounds, Example 38 and Example 39, were prepared by separation of diastereomeric mixture of Example 22 using a Zorbax column from Agilent Technologies (SB-C18 Prep HT column 30 x 150mm 5-micron), mobile phase: 10%-30% CH3CN-H2O, flow rate: 45 mL/min, gradient time: 15 min, Example 38 was isolated as the first eluting peak, Example 39 isolated as the second eluting peak. ESI-MS m/z 541 (M+H)+.
EXAMPLE 40: (R)-3-((R)-3-(3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000100_0001
[00267] In a similar manner to the synthesis of Example 5 utilizing (R)-2-amino-3-(3,4- dimethoxyphenyl)propanoic acid in place of 2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4- yl)acetic acid, and utilizing boron tribromide in the final deprotection reaction, the title compound was prepared. ESI-MS m/z 555 (MH)+.
EXAMPLE 41: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6-hydroxypyridin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000100_0002
Step 1: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6-methoxypyridin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000100_0003
[00268] In a similar manner to the synthesis of Example 7 utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride, the desired compound was prepared. ESI- MS m/z 540 (MH)+. Step 2: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6-hydroxypyridin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000101_0001
[00269] To (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6-methoxypyridin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid 0.05 g (0.1 mmol) was added 48% hydrogen bromide in water (0.5 mL), followed by ethanol (0.15 mL) and the mixture was heated at 80 °C for 18 h. The reaction was quenched with water and purified using reverse phase chromatography to give the title compound. ESI-MS m/z 526 (MH)+.
EXAMPLE 42: (3R)-3-(3-(3-bromo-4,5-dihydroxyphenyl)-3-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000101_0002
[00270] By sequentially following the experimental procedures described in Step 4 of Example 5 utilizing 3-(3,4-dimethoxyphenyl)-DL-beta-alanine in place of 2-amino-2-(2- (((benzyloxy)carbonyl)amino)thiazol-4-yl)acetic acid, the General Method C, and General Method A utilizing BBr3 for the final deprotection reaction, the title compound was prepared. ESI-MS m/z 633/635 (MH/MH+2)+.
EXAMPLE 43: (3R)-3-(3-(3-chloro-4,5-dihydroxyphenyl)-3-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000101_0003
[00271] By sequentially following the experimental procedures described in Step 4 of Example 5 utilizing 3-(3,4-dimethoxyphenyl)-DL-beta-alanine in place of 2-amino-2-(2- (((benzyloxy)carbonyl)amino)thiazol-4-yl)acetic acid, the General Method C, the NCS chlorination reaction as described in Step 1 of Example 13, and deprotection with BBr3, the title compound was prepared. ESI-MS m/z 589/591 (MH/MH+2)+.
EXAMPLE 44: (3R)-3-(2-(2,3-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000102_0001
[00272] In a similar manner to the synthesis of Example 5, utilizing 2-amino-2-(2,3- dimethoxyphenyl)acetic acid in place of 2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4- yl)acetic acid in Step 4, and utilizing BBr3 in the final deprotection reaction, the title compound was prepared. ESI-MS m/z 541 (MH)+.
EXAMPLE 45: (3R)-3-(2-(3-chloro-4,5-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000102_0002
[00273] In a similar manner to the synthesis of Example 62, the fully protected precursor of Example 81 and Example 82 was converted to the title compound by treatment with NCS followed by BBr3. ESI-MS m/z 575/577 (MH/MH+2)+.
EXAMPLE 46: (3R)-3-(3-(3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)-3-hydroxypropanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000102_0003
[00274] The title compound was prepared from 2-amino-3-(3,4-bis(benzyloxy)phenyl)-3-hydroxy- propanoic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d]- [1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 571.2 (M+H)+.
EXAMPLE 47: (3R)-3-(3-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)-3-hydroxypropanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000103_0001
[00275] The title compound was prepared from 2-amino-3-(2-chloro-3,4-dimethoxyphenyl)-3- hydroxypropanoic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d]-[1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 605.1 (M+H)+.
EXAMPLE 48: (3R)-3-(3-(2,3-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)-3-hydroxypropanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000103_0002
[00276] The title compound was prepared from 2-amino-3-(2,3-dimethoxyphenyl)-3- hydroxypropanoic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d]-[1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 571.2 (M+H)+.
EXAMPLE 49: (3R)-3-(2-(3-(2-aminoethoxy)-4-hydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine- 1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000104_0001
EXAMPLE 50: (3R)-3-(2-(3-(2-(((benzyloxy)carbonyl)amino)ethoxy)-4-hydroxyphenyl)-2-(4- ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000104_0002
Step 1. Synthesis of benzyl (2-(2-(benzyloxy)-5-formylphenoxy)ethyl)carbamate.
Figure imgf000104_0003
[00277] To 4-benzyloxy-3-hydroxybenzaldehyde (3.43 g, 15 mmol) in acetone (150 mL) was added benzyl 2-bromoethylcarbamate (6.2 g, 24 mmol) followed by K2CO3 (3.32 g, 24 mmol). The reaction mixture was heated at reflux overnight, cooled to RT, filtered, the filtrate was concentrated in vacuo. To the residue was added hexane, the solid was collected by filtration, washed with hexane, dried in vacuo to afford the title compound, 5 g. ESI-MS m/z 406 (MH)+.
Step 2. Synthesis of (3R)-3-(2-(3-(2-aminoethoxy)-4-hydroxyphenyl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid, and (3R)-3-(2-(3-(2- (((benzyloxy)carbonyl)amino)ethoxy)-4-hydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000105_0001
[00278] In a similar manner to the synthesis of Example 37, the above aldehyde was converted to the title compounds, Example 49 and Example 50 utilizing BCl3 for the final deprotection reaction. Example 49: ESI-MS m/z 584 (MH)+; Example 50: ESI-MS m/z 718 (MH)+.
EXAMPLE 51: (3R)-3-(2-(2-aminothiazol-5-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000105_0002
[00279] In a similar manner to the synthesis of Example 37, utilizing tert-butyl (5-formylthiazol-2- yl)carbamate in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared. ESI-MS m/z 531 (M+H)+.
EXAMPLE 52: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(2-oxoimidazolidine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000105_0003
[00280] In a similar manner to the synthesis of Example 37, utilizing 2-oxoimidazolidine-1-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 519/521 (MH/MH+2)+. EXAMPLE 53: (R)-3-(3-((4-ethyl-2,3-dioxopiperazine-1-carboxamido)methyl)azetidine-3- carboxamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000106_0001
[00281] The title compound was prepared from 3-(aminomethyl)-1-(tert-butoxycarbonyl)azetidine- 3-carboxylic acid hydrochloride salt and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 488.2 (M+H)+.
EXAMPLE 54: (3R)-3-(2-(3,5-dimethyl-1H-pyrazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000106_0002
[00282] The title compound was prepared from 2-amino-2-(3,5-dimethyl-1H-pyrazol-4-yl)acetic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo- [d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 527.2 (M+H)+.
EXAMPLE 55: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyrrolidin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000106_0003
[00283] The title compound was prepared from 2-amino-2-(1-(tert-butoxycarbonyl)pyrrolidin-3- yl)acetic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo- [d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 502.2 (M+H)+.
EXAMPLE 56: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000107_0001
Step 1: Synthesis of lithium 2-((tert-butoxycarbonyl)amino)-2-(pyridin-2-yl)acetate.
Figure imgf000107_0002
[00284] To picolinaldehyde 2.00 g (18.7 mmol) at 0 °C was added 7 N ammonia in methanol (59 mL), followed by trimethylsilyl cyanide 3.51 mL (28 mmol, 1.5 eq), stirred at 45 °C for 7 h and concentrated in vacuo. The crude product was dissolved in 3N hydrochloric acid in methanol (54 mL), stirred at 50 oC for 18 h and concentrated in vacuo to give the HCl salt. The reaction was slurried in tetrahydrofuran (40 mL) and cooled at 0 °C. Triethylamine 8 mL (56 mmol, 3 eq) was added, followed by di-tert-butyl dicarbonate 6.11 g (28 mmol, 1.5 eq), warmed at RT for 1 h and
concentrated in vacuo. The product was purified by flash chromatography on silica gel (20-30% ethyl acetate/hexanes) to give the desired product, 3.64 g. Methyl 2-((tert-butoxycarbonyl)amino)-2- (pyridin-2-yl)acetate 3.64 g (13.7 mmol) was dissolved in tetrahydrofuran (30 mL)/H2O (30 mL), followed by lithium hydroxide monohydrate 0.689 g (16.4 mmol, 1.5 eq) and was stirred at RT for 2 h and concentrated. The product was azeotroped with toluene and dried under high vacuum for 18 h to give the title compound, 3.53 g. ESI-MS m/z 253 (M+H)+.
Step 2: Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000107_0003
[00285] In a similar manner to the synthesis of Example 7 utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonylchloride in place of pyridine-3-sulfonyl chloride, the title compound was prepared. ESI-MS m/z 510 (M+H)+.
EXAMPLE 57: (3R)-3-(2-(1-(2-amino-2-oxoethyl)pyrrolidin-3-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000108_0001
[00286] The title compound was prepared using an adaption of a literature procedure (Li, Z., et al., Proc. Nat. Acad. Sci.2013, 100, 414-419). To a stirred solution of the title compound of Example 55 (26.4 mg.0.043 mmol) and 2-bromoacetamide (7.1 mg, 0.051 mmol) in 0.25 mL acetonitrile, was added a saturated aqueous solution of NaHCO3 (0.05 mL) at 0 °C. The reaction mixture was allowed to warm to room temperature and stirred for 5h. The desired product was isolated by submitting the reaction mixture directly to reverse-phase flash chromatography (C18-Silica gel, water-acetonitrile 0- 50 % gradient, modified with 0.1% TFA) followed by lyophilization. ESI-MS m/z 559.2 (M+H)+. EXAMPLE 58: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(3-(methylsulfonyl)-2- oxoimidazolidine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000108_0002
[00287] In a similar manner to the synthesis of Example 37, utilizing 3-(methylsulfonyl)-2- oxoimidazolidine-1-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 597/599 (MH/MH+2)+. EXAMPLE 59: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-oxo-1,4-dihydro-1,5- naphthyridine-3-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid
Figure imgf000109_0001
[00288] In a similar manner to the synthesis of Example 37, utilizing 4-oxo-1,4-dihydro-1,5- naphthyridine-3-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 579/580 (MH/MH+2)+.
EXAMPLE 60: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1-methyl-1H-pyrazol- 4-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000109_0002
[00289] The title compound was prepared from 2-amino-2-(1-methyl-1H-pyrazol-4-yl)acetic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo- [d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 513.1 (M+H)+.
EXAMPLE 61: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- morpholinophenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000109_0003
Step 1: Synthesis of methyl 2-((tert-butoxycarbonyl)amino)-2-(4-morpholinophenyl)acetate.
Figure imgf000109_0004
[00290] To a dried Schlenk flask was added 2-((tert-butoxycarbonyl)amino)-2-(4- bromophenyl)acetate 0.76 g (2.21 mmol), Xantphos 0.256 g (0.44 mmol, 0.2 eq), Pd(dba)30.2 g (0.22 mmol, 0.1 eq), cesium carbonate 2.16 g (6.6 mmol, 3 eq) and morpholine 0.39 mL (4.42 mmol, 2 eq) under an atmosphere of argon. Dioxane (22 mL) was added to the mixture, degassed 3X and heated at 100 oC for 18 h. The reaction was filtered through Celite, diluted with dichloromethane, washed with water/brine, dried over sodium sulfate and concentrated. The crude product was purified by flash chromatography on silica gel (30-40% ethyl acetate/hexanes) to afford the title compound, 0.42 g. ESI-MS m/z 351 (M+H)+.
Step 2: Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- morpholinophenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000110_0001
[00291] In a similar manner to the synthesis of Example 7 utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride, the title compound was prepared. ESI-MS m/z 594 (M+H)+.
EXAMPLE 62: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1-(hydroxymethyl) cyclopropyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000110_0002
Step 1a. Synthesis of 2-amino-2-(1-((benzyloxy)methyl)cyclopropyl)acetonitrile.
[00292] 1-[(Phenylmethoxy)methyl]cyclopropanecarboxaldehyde (3.91 g, 20.6 mmol) in ethanol (80 mL) was treated at room temperature with ammonium acetate (16 g, 206 mmol, 10 eq) for 2 hours under argon. Neat TMSCN (5 mL, 41.1 mmol, 2 eq) was added dropwise and the reaction mixture was stirred overnight. The reaction was quenched with saturated aqueous NaHCO3 and extracted with ethyl acetate. The combined organic extracts were dried over Na2SO4, filtered and the solvent was evaporated under reduced pressure. The desired product was isolated by flash chromatography (ethyl acetate/hexanes gradient, Silica gel): 1.8 g (40% yield). Step 1b. Synthesis of methyl 2-amino-2-(1-((benzyloxy)methyl)cyclopropyl)acetate.
[00293] 2-Amino-2-(1-((benzyloxy)methyl)cyclopropyl)acetonitrile (1.8 g, 8.3 mmol) in anhydrous methanol (40 mL) was treated with a 3M solution of hydrochloric acid in methanol (40 mL) at 0 °C and the resulting raction mixture was further saturated with gas HCl for 15 min at the same temperature. The flask was next equipped with a condenser and the reaction mixture was stirred at 60 °C overnight, under argon. The volatiles were evaporated under reduced pressure and the residue was suspended in ethyl acetate and neutralized at 0 °C with saturated aqueous NaHCO3 and further extracted with ethyl acetate. The combined organic extracts were washed with brine, dried over Na2SO4, filtered and the solvent was evaporated under reduced pressure. The desired product was isolated by flash chromatography (ethyl acetate/hexanes gradient, Silica gel): 1.55 g (75% yield). Step 1c. Synthesis of 2-(1-((benzyloxy)methyl)cyclopropyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido) acetic acid.
[00294] Methyl 2-amino-2-(1-((benzyloxy)methyl)cyclopropyl)acetate (1.5 g, 6 mmol) in a 1:1 (v/v) tetrahydrofuran/water mixture (100 mL) was treated at 0 °C with LiOH (217 mg, 9 mmol, 1.5 eq) in water (10 mL), and the resulting reaction mixture was stirred for 2 hours. The pH was adjusted to 8.5- 9 with dilute hydrochloric acid; the reaction mixture was treated with 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride (1.54 g, 7.53 mmol, 1.25 eq.) in THF (15 mL), and the stirring was continued at 0 °C for 30 min. The volatiles were evaporated under reduced pressure and the resulting aqueous solution was neutralized at 0 °C with 2 N HCl to pH 2, and extracted 3 times with ethyl acetate (100 mL each). The combined organic extracts were dried over Na2SO4, then filtered, and the solvent was evaporated under reduced pressure to generate 2-(1-((benzyloxy)methyl)cyclopropyl)-2-(4-ethyl-2,3- dioxopiperazine-1-carbox-amido) acetic acid (2.2 g, 90% yield), which was used in the next step without further purification.
Figure imgf000111_0001
Step 2. Synthesis of (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1- (hydroxymethyl)cyclopropyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
[00295] The title compound was prepared from 2-(1-((benzyloxy)methyl)cyclopropyl)-2-(4-ethyl- 2,3-dioxopiperazine-1-carboxamido)acetic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethyl- hexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate and isolated by reverse phase HPLC (Gilson) as the more polar isomer, by a procedure similar to Example 8. ESI-MS m/z 503.0 (M+H)+. EXAMPLE 63: (R)-3-((S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1- (hydroxymethyl)cyclopropyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000112_0001
[00296] The title compound was isolated by reverse phase HPLC (Gilson) as the less polar isomer from the procedure described in Example 62. ESI-MS m/z 503.1 (M+H)+.
EXAMPLE 64: (3R)-3-(2-(4-(2-aminoethyl)phenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000112_0002
Step 1: Synthesis of methyl 2-(4-(2-(((benzyloxy)carbonyl)amino)ethyl)phenyl)-2-((tert- butoxycarbonyl)amino)acetate.
Figure imgf000112_0003
[00297] To 2-((tert-butoxycarbonyl)amino)-2-(4-bromophenyl)acetate 1 g (2.91 mmol) was added (2-(((benzyloxy)carbonyl)amino)ethyl)boronic acid 0.97 g (4.36 mmol, 1.5 eq), cesium carbonate 2.84 g (8.72 mmol, 3 eq), Pd(dppf)Cl .
2dichloromethane 0.24 g (0.29 mmol, 0.1 eq), followed by dioxane (19 mL) and degassed 3X under an atmosphere of argon. The reaction mixture was heated at 100 oC for 4 h, cooled at RT, diluted with dichloromethane, filtered through Celite, washed with water/brine, dried over sodium sulfate and concentrated. The crude product was purified by flash chromatography on silica gel (30% ethyl acetate/hexanes) to afford the title compound, 0.75 g. ESI- MS m/z 443 (M+H)+. Step 2: Synthesis of (3R)-3-(2-(4-(2-aminoethyl)phenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000113_0001
[00298] In a similar manner to the synthesis of Example 7 utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride, the title compound was prepared. ESI-MS m/z 552 (M+H)+.
EXAMPLE 65: (3R)-3-(2-(2-chloro-6-methoxypyridin-3-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000113_0002
[00299] In a similar manner to the synthesis of Example 34, the title compound was prepared. ESI- MS m/z 574 (M+H)+.
EXAMPLE 66: (R)-3-((2R,3R)-3-(2-amino-2-oxoethoxy)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)butanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000113_0003
Step 1. Synthesis of O-(2-amino-2-oxoethyl)-N-(tert-butoxycarbonyl)-D-allothreonine.
[00300] (tert-Butoxycarbonyl)-D-allothreonine (1 g, 4.6 mmol) in anhydrous dimethylformamide (5 mL) was treated at 0 °C with sodium hydride (547 mg 60% w/w suspension in oil, 13.8 mmol, 3 eq) for 30 min, under argon.2-Bromoacetamide (945 mg, 6.9 mmol, 1.5 eq) in in anhydrous
dimethylformamide (5 mL) was added dropwise and the reaction mixture was stirred overnight at room temperature. The reaction was quenched with saturated aqueous ammonium chloride and extracted with diethyl ether. The combined organic extracts were dried over Na2SO4, filtered and the solvent was evaporated under reduced pressure. The desired product was isolated by flash
chromatography (methanol/dichloromethane gradient Silica gel) 476 mg (38% yield).
Figure imgf000114_0001
Step 2. Synthesis of (R)-3-((2R,3R)-3-(2-amino-2-oxoethoxy)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)butanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00301] The title compound was prepared from O-(2-amino-2-oxoethyl)-N-(tert-butoxycarbonyl)-D- allothreonine and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethyl-hexahydro-4,6-methanobenzo [d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate by a procedure similar to Example 6, employing 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride instead of ethyl isocyanate. ESI-MS m/z 534.2 (M+H)+.
EXAMPLE 67: (3R)-3-(2-(2-chloro-6-hydroxypyridin-3-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000114_0002
[00302] In a similar manner to the synthesis of Example 41, the title compound was prepared. ESI- MS m/z 560 (M+H)+.
EXAMPLE 68: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- (sulfamoylamino)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000114_0003
[00303] In a similar manner to the synthesis of Example 33, utilizing tert-butyl
(chlorosulfonyl)carbamate (derived from chlorosulfonyl isocynate and tert-butanol) in place of 4- ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 541 (M+H)+.
EXAMPLE 69: (3R)-3-(3-acetamido-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000115_0001
[00304] In a similar manner to the synthesis of Example 33, utilizing acetyl chloride in place of 4- ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 504 (M+H)+.
EXAMPLE 70: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000115_0002
[00305] In a similar manner to the synthesis of Example 37, utilizing 2-fluoro-3,4- dimethoxybenzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared. ESI-MS m/z 559 (M+H)+.
EXAMPLE 71: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000115_0003
[00306] In a similar manner to the synthesis of Example 37, utilizing 4-fluoroethyl-2,3- dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 593/595 (MH/MH+2)+.
EXAMPLE 72: (3R)-3-(2-(1-(carboxymethyl)piperidin-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000116_0001
Step 1. Synthesis of tert-butyl 4-(2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl)ethyl)amino)-1-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-oxoethyl)piperidine-1- carboxylate.
[00307] tert-Butyl 4-(2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)amino)-1-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)-2-oxoethyl)piperidine-1-carboxylate was prepared from 2-amino-2- (1-(tert-butoxycarbonyl)piperidin-4-yl)acetic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5- trimethyl-hexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate by a procedure similar to Example 8, Steps 1 and 2.
Step 2. Synthesis of tert-butyl 3-((2R)-2-(2-(1-(2-(tert-butoxy)-2-oxoethyl)piperidin-4-yl)-2-(4- ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate. Step 2a.
[00308] tert-Butyl 4-(2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)amino)-1-(4-ethyl-2,3- dioxopip-erazine-1-carboxamido)-2-oxoethyl)piperidine-1-carboxylate was converted to tert-butyl 3- ((2R)-2-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(piperidin-4-yl)acetamido)-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate, hydrochloric acid salt by a procedure similar to Example 6, Step 2.
Step 2b.
[00309] tert-Butyl 3-((2R)-2-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(piperidin-4-yl) acet-amido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl) ethyl)-2-methoxybenzoate, hydrochloric acid salt (193.5 mg, 0.25 mmol) in acetonitrile (2 mL) was treated with diisopropylethylamine (0.1 mL, 0.5 mmol, 2 eq) and tert-butyl 2-bromoacetate (0.04 mL, 0.275 mmol, 1.1 eq) overnight, at room temperature. The reaction mixture was partitioned between diethyl ether and water and the aqueous phase was extracted two more times with diethyl ether. The combined organic extracts were dried over Na2SO4, filtered, and the solvent was evaporated under reduced pressure. The crude product was further dried on high vacuum overnight and used in the next step without purification.
Figure imgf000117_0001
Step 3. Synthesis of (3R)-3-(2-(1-(carboxymethyl)piperidin-4-yl)-2-(4-ethyl-2,3-dioxopiperazine- 1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt.
[00310] The title compound was prepared from the product of Step 2b in this example by a procedure similar to Example 8, Step 3. ESI-MS m/z 574.3 (M+H)+.
EXAMPLE 73: (R)-3-((R)-3-((carboxymethyl)amino)-2-(4-ethyl-2,3-dioxopiperazine-1-carbox- amido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid, trifluoroacetic acid salt
Figure imgf000117_0002
[00311] The title compound was prepared from (R)-2-amino-3-((tert- butoxycarbonyl)amino)propanoic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5- trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxa-borol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 72. ESI-MS m/z 520.2 (M+H)+. EXAMPLE 74: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4-(2- hydroxyethoxy)phenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000118_0001
Step 1: Synthesis of methyl 2-(4-(2-(benzyloxy)ethoxy)phenyl)-2-((tert- butoxycarbonyl)amino)acetate.
Figure imgf000118_0002
[00312] To methyl 2-(4-hydroxyphenyl)-2-((tert-butoxycarbonyl)amino)acetate 1 g (3.56 mmol) in N,N-dimethylformamide (10 mL) was added cesium carbonate 3.5 g (10.7 mmol, 3 eq), followed by ((2-bromoethoxy)methyl)benzene 0.84 mL(5.34 mmol, 1.5 eq) and the mixture was heated at 80 oC for 1.5 h. The reaction was cooled at RT, diluted with ethyl acetate, washed with water/brine, dried over sodium sulfate, and concentrated. The crude product was purified by flash chromatography on silica gel (30% ethyl acetate/hexanes) to afford the title compound, 1.4 g. ESI-MS m/z 416 (M+H)+. Step 2: Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4-(2- hydroxyethoxy)phenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000118_0003
[00313] In a similar manner to the synthesis of Example 7 utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride, the title compound was prepared. ESI-MS m/z 569 (M+H)+. EXAMPLE 75: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3-((trifluoromethyl) sulfonamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000119_0001
[00314] The title compound was prepared by a procedure similar to Examples 72 and 73, except for employing trifluoromethanesulfonyl chloride instead of tert-butyl 2-bromoacetate and
dichloromethane as a solvent in Step 2b. ESI-MS m/z 594.1 (M+H)+.
EXAMPLE 76: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4-(2- fluoroethoxy)phenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000119_0002
[00315] In a similar manner to the synthesis of Example 74 utilizing boron trichloride in place of boron tribromide, the title compound was prepared. ESI-MS m/z 571 (M+H)+.
EXAMPLE 77: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1-sulfamoylpiperidin- 4-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000119_0003
Step 1. Synthesis of tert-butyl 3-((2R)-2-(2-(1-(N-(tert-butoxycarbonyl)sulfamoyl)piperidin-4- yl)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethyl-hexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
[00316] tert-Butyl 3-((2R)-2-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(piperidin-4-yl) acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl)ethyl)-2-methoxybenzoate, hydrochloric acid salt (from Example 72 Step 2a; 193.5 mg, 0.25 mmol) in dichloromethane (3 mL) was treated at 0 °C with diisopropylethylamine (0.07 mL, 0.4 mmol, 1.6 eq) and a solution of tert-butyl (chlorosulfonyl)carbamate in dichloromethane (2 mL), freshly prepared separately from isocyanate sulfuryl chloride (40 mg, 0.275 mmol, 1.1 eq) and tert- butanol (20.5 mg, 0.275 mmol, 1.1 eq). The reaction mixture was stirred at room temperature for 2 hours and next it was partitioned between diethyl ether and water. The aqueous phase was extracted two more times with diethyl ether. The combined organic extracts were dried over Na2SO4, filtered, and the solvent was evaporated under reduced pressure. The crude product was further dried on high vacuum overnight and used in the next step without purification.
Figure imgf000120_0001
Step 2. Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1-sulfamoyl- piperidin-4-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00317] The title compound was prepared from the product of Step 1 in this example by a procedure similar to Example 8, Step 3. ESI-MS m/z 595.2 (M+H)+.
EXAMPLE 78: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1-sulfamoylazetidin- 3-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000120_0002
[00318] The title compound was prepared from tert-butyl 3-(1-amino-2-methoxy-2- oxoethyl)azetidine-1-carboxylate and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate by a procedure similar to Example 62, Step 1c, and Example 77. ESI-MS m/z 567.1 (M+H)+. EXAMPLE 79: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4-hydroxy-3- ((sulfamoylamino)methyl)butanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000121_0001
[00319] The title compound was isolated by reverse phase HPLC (Gilson) as a byproduct of the final step in Example 78. ESI-MS m/z 585.1 (M+H)+.
EXAMPLE 80: (3R)-3-(4-chloro-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- ((sulfamoylamino)methyl)butanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000121_0002
[00320] The title compound was isolated by reverse phase HPLC (Gilson) as a byproduct of the final step in Example 78. ESI-MS m/z 603.1 (M+H)+.
EXAMPLE 81: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5-methoxypyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000121_0003
[00321] In a similar manner to the synthesis of Example 56 utilizing lithium 2-((tert- butoxycarbonyl)amino)-2-(5-methoxypyridin-2-yl)acetate in place of lithium 2-((tert- butoxycarbonyl)amino)-2-(pyridin-2-yl)acetate, the title compound was prepared. ESI-MS m/z 540 (M+H)+. EXAMPLE 82: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(2,3-dioxo-4-propylpiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000122_0001
Step 1. Synthesis of 2,3-dioxo-4-propylpiperazine-1-carbonyl chloride.
Figure imgf000122_0002
[00322] In a similar manner to the synthesis of 2,3-dioxo-4-fluoroethylpiperazine-1-carbonyl chloride described in Step 1 and Step 2 of Example 13, utilizing the commercially available N- propylethylenediamine in Step 1, the title compound was prepared.
Step 2. Synthesis of (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(2,3-dioxo-4-propylpiperazine- 1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000122_0003
[00323] In a similar manner to the synthesis of Example 37, utilizing 4-propyl-2,3-dioxopiperazine- 1-carbonyl chloride (product from Step 1) in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 589/591 (MH/MH+2)+. EXAMPLE 83: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- (methylsulfonamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000123_0001
EXAMPLE 84: (R)-3-((S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- (methylsulfonamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000123_0002
[00324] In a similar manner to the synthesis of Example 33, utilizing methanesulfonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compounds, Example 83 and Example 84 were separated by reverse phase HPLC. ESI-MS m/z 540 (M+H)+.
EXAMPLE 85: (3R)-3-(2-(2-chloro-4,5-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000123_0003
[00325] In a similar manner to the synthesis of Example 37, utilizing 2-chloro-4,5- dimethoxybenzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared. ESI-MS m/z 575 (M+H)+. EXAMPLE 86: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-fluoro-6- hydroxypyridin-3-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000124_0001
[00326] In a similar manner to the synthesis of Example 41, the title compound was prepared. ESI- MS m/z 544 (M+H)+.
EXAMPLE 87: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-fluoro-4- hydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000124_0002
[00327] In a similar manner to the synthesis of Example 37, utilizing 2-fluoro-4- methoxybenzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared. ESI-MS m/z 543 (M+H)+.
EXAMPLE 88: (3R)-3-(2-(2-chloro-4-hydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000124_0003
[00328] In a similar manner to the synthesis of Example 37, utilizing 2-chloro-4- methoxybenzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared. ESI-MS m/z 559/561 (MH/MH+2)+. EXAMPLE 89: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5-hydroxypyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000125_0001
Step 1: Synthesis of 5-(benzyloxy)picolinaldehyde.
Figure imgf000125_0002
[00329] To 5-hydroxypicolinaldehyde 1.1 g (8.94 mmol) in N,N-dimethylformamide (10 mL) was added cesium carbonate 8.7 g (26.8 mmol, 3eq), followed by benzyl bromide 1.32 mL (13.4 mmol, 1.5 eq) and heated at 80 oC for 2 h. The reaction was diluted with ethyl acetate, washed with water/brine, dried over sodium sulfate and concentrated. The product was purified by flash chromatography on silica gel (3% methanol/dichloromethane) using preparatory TLC plates to give the desired product, 1.12 g.
ESI-MS m/z 214 (M+H)+.
Step 2: Synthesis of lithium 2-(5-(benzyloxy)pyridin-2-yl)-2-((tert- butoxycarbonyl)amino)acetate.
Figure imgf000125_0003
[00330] In a similar manner to the synthesis of Example 56 utilizing 5-(benzyloxy)picolinaldehyde in place of picolinaldehyde to give the title compound. ESI-MS m/z 359 (M+H)+.
Step 3: Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000125_0004
[00331] In a similar manner to the synthesis of Example 7 utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride, the title compound was prepared. ESI-MS m/z 526 (M+H)+.
EXAMPLE 90: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-fluoro-4,5- dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000126_0001
[00332] In a similar manner to the synthesis of Example 37, utilizing 2-fluoro-4,5- dimethoxybenzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared. ESI-MS m/z 575 (M+H)+.
EXAMPLE 91: (R)-3-((R)-2-(1-carbamimidoylpiperidin-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000126_0002
[00333] The title compound was prepared from tert-butyl 3-((2R)-2-(2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)-2-(piperidin-4-yl)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, hydrochloric acid salt (from Example 72, Step 2a) and tert-butyl (Z)-(((tert- butoxycarbonyl)amino)(1H-pyrazol-1-yl)methylene)carbamate by a procedure similar to Example 72. ESI-MS m/z 558.2 (M+H)+.
EXAMPLE 92: (R)-3-((S)-2-(1-carbamimidoylpiperidin-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000126_0003
[00334] The title compound was isolated by reverse phase HPLC (Gilson) as the more polar isomer in Example 91. ESI-MS m/z 558.1 (M+H)+.
EXAMPLE 93: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-fluoro-4,5- dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000127_0001
[00335] In a similar manner to the synthesis of Example 37, utilizing 4-(1H-tetrazol-5- yl)benzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared. ESI-MS m/z 577 (M+H)+.
EXAMPLE 94: (R)-3-((2R,3R)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2,6,7-trihydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000127_0002
Step 1. Synthesis of tert-butyl 3-bromo-2,5,6-trimethoxybenzoate.
Step 1a.
[00336] 2,3,6-Trimethoxybenzoic acid (10.6 g, 50 mmol) in dioxane (100 mL) was treated dropwise with a solution of bromine (8 g, 2.6 mL) in dioxane (50 mL) at room temperature. The reaction mixture was stirred for an additional 2 hours and next it was partitioned between water and diethyl ether. The organic extracts were dried over Na2SO4, filtered, and the solvent was evaporated under reduced pressure. The crude product was further dried on high vacuum and used in the next step without purification.
Step 1b.
[00337] The product of Step 1a in dichloromethane (100 mL) was treated with tert-butyl 2,2,2- trichloroacetimidate (18 mL, 100 mmol) at room temperature, overnight. The reaction mixture was diluted with hexanes and filtered. The solvent in the filtrate was evaporated and the resulting product was purified by flash chromatography (ethyl acetate / hexane 0 to 10% gradient, Silica gel) to afford tert-butyl 3-bromo-2,5,6-trimethoxybenzoate (16 g, 92% yield)
Step 2. Synthesis of tert-butyl 2,3,6-trimethoxy-5-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate.
[00338] A mixture of tert-butyl 3-bromo-2,5,6-trimethoxybenzoate (4.64 g, 13.4 mmol), bis[(+)- pinanediolato]diboron (7.2 g, 20 mmol), [1,1¢- bis(diphenylphosphino)ferrocene]dichloropalladium(II), complex with dichloromethane (570 mg, 0.7 mmol), and potassium acetate (4.1 g, 42 mmol) in dimethylformamide (50 mL) was stirred at 80 °C overnight, under argon. The cooled reaction mixture was diluted with ethyl acetate and filtered through Celite. The solvent in the filtrate was evaporated under reduced pressure and the residue was partitioned between diethyl ether and water. The aqueous phase was extracted two more times with diethyl ether. The organic extracts were dried over Na2SO4, filtered, and the solvent was evaporated under reduced pressure. The product was isolated by flash chromatography (ethyl acetate / hexane 0 to 10% gradient, Silica gel): 5.1 g (86% yield).
Step 3. Synthesis of tert-butyl 3-((S)-2-chloro-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2,5,6-trimethoxybenzoate.
[00339] tert-Butyl 2,3,6-trimethoxy-5-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo [d][1,3,2]dioxaborol-2-yl)benzoate was converted to tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2,5,6-trimethoxybenzoate by a two-step procedure similar to Example 16, Steps 5 and 6.
Figure imgf000128_0001
Step 4. Synthesis of (R)-3-((2R,3R)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2,6,7-trihydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00340] The title compound was prepared from D-allothreonine, 4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carbonyl chloride (prepared as in Example 13), and tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2,5,6-trimethoxybenzoate by a procedure similar to Example 8, employing boron tribromide instead of boron trichloride. ESI-MS m/z 527.1 (M+H)+. EXAMPLE 95: (R)-3-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2,6,7-trihydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000129_0001
[00341] The title compound was prepared from D-allo-threonine and tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2,5,6-trimethoxybenzoate by a procedure similar to Example 94. ESI-MS m/z 509.2 (M+H)+.
EXAMPLE 96: (R)-3-((2R,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2,6,7-trihydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000129_0002
[00342] The title compound was prepared from D-threonine and tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2,5,6-trimethoxybenzoate by a procedure similar to Example 94. ESI-MS m/z 509.1 (M+H)+.
EXAMPLE 97: (R)-3-((R)-2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000129_0003
EXAMPLE 98: (R)-3-((S)-2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)propanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000130_0001
[00343] In a similar manner to the synthesis of Example 37, utilizing 1-(2-aminothiazol-4- yl)ethanone in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compounds, Example 97 and Example 98 were separated by reversed phase HPLC. ESI-MS m/z 545 (M+H)+.
EXAMPLE 99: (3R)-3-(2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000130_0002
[00344] In a similar manner to the synthesis of Example 89 utilizing 4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 544 (M+H)+.
EXAMPLE 100: (3R)-3-(2-(2-aminothiazol-5-yl)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000130_0003
[00345] In a similar manner to the synthesis of Example 37, utilizing tert-butyl (5-formylthiazol-2- yl)carbamate in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, and utilizing 4-fluoroethyl- 2,3-dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 549 (M+H)+.
EXAMPLE 101: (3R)-3-(2-(2-aminothiazol-5-yl)-2-(2,3-dioxo-4-propylpiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000131_0001
[00346] In a similar manner to the synthesis of Example 37, utilizing tert-butyl (5-formylthiazol-2- yl)carbamate in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, and utilizing 4-propyl-2,3- dioxopiperazine-1-carbonyl chloride (product from Step 1 of Example 82) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 545 (M+H)+.
EXAMPLE 102: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000131_0002
[00347] In a similar manner to the synthesis of Example 37, utilizing 4-formylbenzenesulfonamide in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compounds was prepared. ESI- MS m/z 588 (M+H)+.
EXAMPLE 103: (3R)-3-(2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000131_0003
[00348] In a similar manner to the synthesis of Example 37, utilizing 4-formylbenzenesulfonamide in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, and utilizing 4-fluoroethyl-2,3- dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 549 (M+H)+.
EXAMPLE 104: (3R)-3-(2-(6-aminopyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000132_0001
Step 1: Synthesis of benzyl (6-formylpyridin-2-yl)carbamate.
Figure imgf000132_0002
[00349] To 6-aminopicolinaldehyde 1.5 g (12.3 mmol) in tetrahydrofuran (45 mL) at 0 oC was added diisopropylethylamine 3.2 mL (17.2 mmol, 1.4 eq), followed by benzyl chloroformate 2.41 mL (17.2 mmol, 1.4 eq) and the reaction was stirred at RT for 18 h. The solvent was concentrated off and purified by flash chromatography on silica gel (20% ethyl acetate/hexanes) to afford the title compound, 1.97 g. ESI-MS m/z 257 (M+H)+.
Step 2: Synthesis of (3R)-3-(2-(6-aminopyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000132_0003
[00350] In a similar manner to the synthesis of Example 56, the title compound was prepared. ESI- MS m/z 525 (M+H)+. EXAMPLE 105: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyridin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000133_0001
Step 1. Synthesis of tert-butyl 3-((2R)-2-(2-amino-2-(pyridin-3-yl)acetamido)-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate.
Figure imgf000133_0003
[00351] By following the same experimental procedures of Step 1 and Step 2 of Example 6, the title compound was prepared from 2-((tert-butoxycarbonyl)amino)-2-(pyridin-3-yl)acetic acid as an HCl salt. ESI-MS m/z 564 (M+H)+.
Step 2. Synthesis of tert-butyl 3-((2R)-2-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- (pyridin-3-yl)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000133_0002
[00352] In a similar manner to the synthesis of Example 7, utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of pyridine-3-sulfonyl chloride in Step 1, the title compound was prepared from the above amine intermediate. ESI-MS m/z 732 (M+H)+. Step 3. Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyridin-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000134_0001
[00353] By following the General Method A, the above product was treated with BBr3 to afford the title compound. ESI-MS m/z 510 (M+H)+.
EXAMPLE 106: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(1-methylpyridin-1- ium-3-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylate
Figure imgf000134_0002
[00354] The product from Step 2 of Example 105 (183 mg, 0.25 mmol) was dissolved in acetone (5 mL), reacted with methyl iodide (0.19 mL, 3 mmol) at RT overnight, and then concentrated. By following the General Method A, this crude product was treated with BBr3 to afford the title compound. ESI-MS m/z 524 (M+H)+. EXAMPLE 107: (3R)-3-(2-(1-(2-amino-2-oxoethyl)pyridin-1-ium-3-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylate
Figure imgf000135_0001
[00355] In a similar manner to the synthesis of Example 106, utilizing 2-bromoacetamide in place of methyl iodide, the title compound was prepared. ESI-MS m/z 567 (M+H)+.
EXAMPLE 108: 2-(3-(2-(((R)-8-carboxy-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinin-3- yl)amino)-1-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-oxoethyl)pyridin-1-ium-1-yl)acetate
Figure imgf000135_0002
[00356] In a similar manner to the synthesis of Example 106, utilizing tert-butyl 2-bromoacetate in place of methyl iodide, the title compound was prepared. ESI-MS m/z 568 (M+H)+.
EXAMPLE 109: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000135_0003
Step 1. Synthesis of tert-butyl(4-fluoro-2-methoxyphenoxy)dimethylsilane.
Figure imgf000135_0004
[00357] To a solution of 4-fluoro-2-methoxyphenol (5.68 g, 40 mmol) in DCM (100 mL) was added TEA (11.2 mL, 80 mmol), 4-DMAP (488 mg, 4 mmol) followed by TBSCl (7.5 g, 49.8 mmol). The reaction mixture was stirred at RT for overnight, then re-cooled to 0 oC, Boc2O (36.7 g, 168 mmol) was added. The reaction mixture was stirred at RT overnight, washed with aqueous NaHCO3, dried over Na2SO4, and concentrated. The crude product was purified by flash chromatography on silica gel (hexane-EtOAc, 50:1-10:1) to afford the title compound, 10 g. ESI-MS m/z 257 (M+H)+.
Step 2. Synthesis of tert-butyl 3-((tert-butyldimethylsilyl)oxy)-6-fluoro-2-methoxybenzoate. -65 oC
Figure imgf000136_0001
[00358] To a solution of diisopropylamine (6.6 mL, 46.8 mmol) in anhydrous THF (120 mL) at -65 oC was added nBuLi (2.5 M, 18.72 mL, 46.8 mmol) dropwise under argon. The reaction mixture was stirred between -60 oC - -55 oC for 20 min. To this reaction mixture was added the above product (10 g, 39 mmol) in THF (15 mL) dropwise, stirred for 1 h, then Boc2O (28.19 g, 129 mmol) was added. The reaction mixture was slowly warmed up to RT, and stirred at RT overnight, quenched with water, extracted with ethyl acetate. The organic extracts were washed with brine, dried over Na2SO4, and concentrated. The crude product was purified by flash chromatography on silica gel (DCM-hexane, 1:20-1:1) to afford the title compound (8 g), which was contaminated with some by product and Boc2O. ESI-MS m/z 357 (M+H)+.
Step 3. Synthesis of tert-butyl 6-fluoro-3-hydroxy-2-methoxybenzoate.
Figure imgf000136_0002
[00359] To a solution of the above product (8 g, 22.5 mmol) in THF (150 mL) was added TBAF (1.0 M, 50 mL, 50 mmol), the reaction was stirred at RT for 1.5 h, diluted with EtOAc, washed with saturated aqueous NaHCO3, brine, dried over Na2SO4, and concentrated. The crude product was purified by flash chromatography on silica gel (hexane-EtOAc, 40:1-2:1) to afford the title compound, 1.4 g, ESI-MS m/z 243 (M+H)+, and O-Boc product, 2.6 g, ESI-MS m/z 343 (M+H)+. The O-Boc product (2.6 g) was treated with excess piperidine in DCM at RT overnight to afford additional 1.4 g of the title compound after purification by flash chromatography. Step 4. Synthesis of tert-butyl 6-fluoro-2-methoxy-3-(((trifluoromethyl)sulfonyl)oxy)benzoate.
Figure imgf000137_0002
[00360] To a solution of the above product (1.4 g, 5.8 mmol) in DCM (50 mL) was added PhNTf2 (2.9 g, 8.12 mmol), TEA (2.03 mL, 14.5 mmol) and 4-DMAP (71 mg, 0.58 mmol). The reaction mixture was stirred at RT overnight, washed with saturated aqueous NaHCO3, dried over Na2SO4, and concentrated. The crude product was purified by flash chromatography on silica gel (hexane-DCM, 10:1-1:4) to afford the title compound, 1.9 g. ESI-MS m/z 375 (M+Na)+.
Step 5. Synthesis of tert-butyl 6-fluoro-2-methoxy-3-((3aS,4S,6S)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate.
Figure imgf000137_0003
[00361] To the above product (3.85 g, 10.3 mmol) in dry DMF (35 mL) was added bis[(+)- pinanediolato]diboron (5.7 g, 15.9 mmol), KOAc (3.1 g, 31.6 mmol) and Pd(dppf)Cl .
2DCM (430 mg, 0.53 mmol). The reaction mixture was stirred at 90-100 oC overnight, added water, and extracted with diethyl ether. The ether extracts were washed with water, brine, dried over Na2SO4, and concentrated. The crude product was purified by flash chromatography on silica gel (hexane-DCM, 10:1-1:10) to afford the title compound, 2.4 g. ESI-MS m/z 831 (2M+Na)+.
Step 6. Synthesis of tert-butyl 6-fluoro-2-methoxy-3-(((3aS,4S,6S)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)methyl)benzoate.
Figure imgf000137_0001
[00362] To a solution of chloroiodomethane (3.2 mL, 43.9 mmol) in THF (70 mL) at -78 oC was added dropwise under Argon isopropyl magnesium chloride lithium chloride complex solution (1.3 M in THF, 16.8 mL, 21.8 mmol) over 20 min. The resulting solution was stirred at -78 oC for 45 min, then a solution of the above product (2.38 g, 5.89 mmol) in THF (9 mL) was added slowly over 20 min. After the addition was completed, the reaction mixture was stirred for 1.5 h. To this solution was added ZnCl2 solution (1.0 M in ether, 6.4 mL, 6.4 mmol) dropwise, and stirring continued for 15 min after the addition was completed. The cold bath was removed, the reaction mixture was stirred at RT overnight, cooled to -30 oC, diluted with diethyl ether, washed with aqueous NH4Cl, water and brine, dried over Na2SO4, and concentrated, purified by flash chromatography on silica gel (hexane-EtOAc, 20:1-5:1) to give the title compound, 2.24 g. ESI-MS m/z 441 (M+Na)+.
Step 7. Synthesis of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro-2-methoxybenzoate.
Figure imgf000138_0002
[00363] To a cooled (-100 oC. MeOH/N2) solution of DCM (0.82 mL, 12.8 mmol) in THF (15 mL) was added dropwise, down the side of the flask nBuLi (2.5 M in hexane, 3.06 mL, 7.65 mmol) over 20 min. The resulting mixture was stirred for 45 min, then a solution of the above product (2.24 g, 5.36 mmol) in THF (8 mL) was added slowly down the side of the flask over 20 min, and stirring continued for 45 min after the addition was completed. To the resulting mixture was added dropwise a solution of ZnCl2 (1.0 M in ether, 7.3 mL, 7.3 mmol) over 5 min. After 15 min, the methanol/N2 bath was replaced with a dry ice/acetone bath (-10 oC), and stirring continued for 1.5 h. The reaction mixture was diluted with diethyl ether and washed with aqueous NH4Cl, water and brine, dried over Na2SO4, and concentrated. The crude product was purified by flash chromatography on silica gel (hexane-EtOAc, 20:1-4:1) to afford the the title compound, 2.1 g. ESI-MS m/z 489 (M+Na)+.
Step 8. Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000138_0001
[00364] In a similar manner to the synthesis of Example 5, the title compound was prepared from the above chloride by following the General Method C and General Method A. ESI-MS m/z 549 (M+H)+. EXAMPLE 110: (R)-3-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000139_0001
[00365] The title compound was prepared from D-allothreonine and tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6- fluoro-2-methoxybenzoate (from Example 109) by a procedure similar to Example 8. ESI-MS m/z 495.2 (M+H)+.
EXAMPLE 111: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyrimidin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000139_0002
[00366] In a similar manner to the synthesis of Example 56 utilizing lithium 2-((tert- butoxycarbonyl)amino)-2-(pyrimidin-2-yl)acetate in place of lithium 2-((tert-butoxycarbonyl)amino)- 2-(pyridin-2-yl)acetate, the title compound was prepared. ESI-MS m/z 511 (M+H)+.
EXAMPLE 112: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000139_0003
Step 1. Synthesis of benzyl 2-(4-bromophenyl)-2-((tert-butoxycarbonyl)amino)acetate.
Figure imgf000139_0004
[00367] To a solution of 2-(4-bromophenyl)-2-((tert-butoxycarbonyl)amino)acetic acid (4.95 g, 15 mmol) in DMF (100 mL) was added KHCO3 (2.25 g, 22.5 mmol), followed by benzyl bromide (3.08 g, 18 mmol). The reaction mixture was stirred at RT for 5 h, diluted with ethyl acetate, washed with water, brine, dried over Na2SO4, concentrated in vacuo to afford the crude product, which was used directly for the next step without further purification. ESI-MS m/z 420/422 (MH/MH+2)+.
Step 2. Synthesis of benzyl 2-((tert-butoxycarbonyl)amino)-2-(4-((3aS,4S,6S)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)phenyl)acetate.
Figure imgf000140_0001
[00368] To the above product (2.94 g, 7 mmol) in dry dioxane (50 mL) was added bis[(+)- pinanediolato]diboron (3.4 g, 9.5 mmol), KOAc (2.2 g, 22.4 mmol) and Pd(dppf)Cl .
2DCM (300 mg, 0.37 mmol). The reaction mixture was stirred at 90-100 oC overnight, filtered through a pad of Celite, and concentrated. The crude product was purified by flash chromatography on silica gel (hexane- EtOAc, 20:1-4:1) to afford the title compound, 3.6 g. ESI-MS m/z 542 (M+Na)+.
Step 3. Synthesis of 2-((tert-butoxycarbonyl)amino)-2-(4-((3aS,4S,6S)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)phenyl)acetic acid.
Figure imgf000140_0002
[00369] The above product (3.6 g, 6.94 mmol) in EtOAc (150 mL) was hydrogenated using a hydrogen balloon in the presence of 10% Pd/C (600 mg) at RT for 2 h. The reaction mixture was filtered through a pad of Celite, and concentrated in vacuo to afford the crude product, which was used directly for the next step without further purification. ESI-MS m/z 452 (M+Na)+.
Step 4. Synthesis of (3R)-3-(2-(4-boronophenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000140_0003
[00370] In a similar manner to the synthesis of Example 6, utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of ethyl isocyanate in Step 3, the title compound was prepared from the above acid. ESI-MS m/z 553 (M+H)+.
EXAMPLE 113: (3R)-3-(2-(4-boronophenyl)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000141_0001
[00371] In a similar manner to the synthesis of Example 112, utilizing 4-fluoroethyl-2,3- dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 4, the title compound was prepared. ESI-MS m/z 571 (M+H)+.
EXAMPLE 114: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5-fluoropyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000141_0002
[00372] In a similar manner to the synthesis of Example 56 utilizing lithium 2-((tert- butoxycarbonyl)amino)-2-(5-fluoropyridin-2-yl)acetate in place of lithium 2-((tert- butoxycarbonyl)amino)-2-(pyridin-2-yl)acetate, the title compound was prepared. ESI-MS m/z 528 (M+H)+.
EXAMPLE 115: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(thiophen-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000141_0003
[00373] The title compound was prepared from 2-amino-2-(thiophen-2-yl)acetic acid and 3-((2S)-2- chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 515.2 (M+H)+.
EXAMPLE 116: (3R)-3-(2-cyclopentyl-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000142_0001
[00374] The title compound was prepared from (R)-2-amino-2-cyclopentylacetic acid and 3-((2S)-2- chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 501.2 (M+H)+.
EXAMPLE 117: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6-hydroxypyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000142_0002
[00375] In a similar manner to the synthesis of Example 41, the title compound was prepared. ESI- MS m/z 526 (M+H)+.
EXAMPLE 118: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- (methylsulfonyl)phenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000142_0003
[00376] In a similar manner to the synthesis of Example 37, utilizing 4- (methylsulfonyl)benzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compounds was prepared. ESI-MS m/z 587 (M+H)+. EXAMPLE 119: (3R)-3-(2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(4- (methylsulfonyl)phenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000143_0001
[00377] In a similar manner to the synthesis of Example 37, utilizing 4- (methylsulfonyl)benzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, and utilizing 4-fluoroethyl-2,3-dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 605 (M+H)+.
EXAMPLE 120: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(6-methoxypyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000143_0002
[00378] In a similar manner to the synthesis of Example 56 utilizing lithium 2-((tert- butoxycarbonyl)amino)-2-(6-methoxypyridin-2-yl)acetate in place of lithium 2-((tert- butoxycarbonyl)amino)-2-(pyridin-2-yl)acetate, the title compound was prepared. ESI-MS m/z 540 (M+H)+.
EXAMPLE 121: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5-hydroxypyrazin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000143_0003
[00379] In a similar manner to the synthesis of Example 41, the title compound was prepared. ESI- MS m/z 527 (M+H)+. EXAMPLE 122: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(tetrahydrofuran-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000144_0001
[00380] The title compound was prepared from 2-amino-2-(tetrahydrofuran-2-yl)acetic acid and 3- ((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol-2- yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 503.2 (M+H)+. EXAMPLE 123: (3R)-3-(2-(1,1-dioxidotetrahydrothiophen-3-yl)-2-(4-ethyl-2,3-dioxopiperazine- 1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000144_0002
[00381] The title compound was prepared from 3-thiopheneacetic acid, a-aminotetrahydro-, 1,1- dioxide and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo- [d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 551.1 (M+H)+.
EXAMPLE 124: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000144_0003
[00382] In a similar manner to the synthesis of Example 37, utilizing the chloride intermediate from Step 7 of Example 109 in Step 2, the title compound was prepared. ESI-MS m/z 593/595
(MH/MH+2)+. EXAMPLE 125: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000145_0001
[00383] In a similar manner to the synthesis of Example 124, utilizing 4-propyl-2,3- dioxopiperazine-1-carbonyl chloride (product from Step 1 of Example 82) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 607/609 (MH/MH+2)+.
EXAMPLE 126: (R)-7-fluoro-3-((2R,3R)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1- carboxamido)-3-hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000145_0002
[00384] The title compound was prepared from D-allothreonine and tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6- fluoro-2-methoxybenzoate (from Example 109), by a procedure similar to Example 8. ESI-MS m/z 513.1 (M+H)+.
EXAMPLE 127: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5-methylpyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000145_0003
[00385] The title compound was prepared according to the method of Example 56 utilizing lithium 2-((tert-butoxycarbonyl)amino)-2-(5-methylpyridin-2-yl)acetate in place of lithium 2-((tert- butoxycarbonyl)amino)-2-(pyridin-2-yl)acetate. ESI-MS m/z 524 (M+H)+. EXAMPLE 128: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5-hydroxypyridin-2- yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000146_0001
Step 1: Synthesis of 5-(benzyloxy)picolinaldehyde.
Figure imgf000146_0002
[00386] To 5-hydroxypicolinaldehyde 1.1 g (8.94 mmol) in N,N-dimethylformamide (10 mL) was added cesium carbonate 8.7 g (26.8 mmol, 3 eq), followed by benzyl bromide 1.32 mL (13.4 mmol, 1.5 eq) and heated at 80 oC for 2 h. The reaction was diluted with ethyl acetate, washed with water/brine, and dried over sodium sulfate and concentrated. The product was purified by flash chromatography on silica gel (3% methanol/dichloromethane) using preparatory TLC plates to give the desired product, 1.12 g.
ESI-MS m/z 214 (M+H)+.
Step 2: Synthesis of lithium 2-(5-(benzyloxy)pyridin-2-yl)-2-((tert- butoxycarbonyl)amino)acetate.
Figure imgf000146_0003
[00387] In a similar manner to the synthesis of Example 56 utilizing 5-(benzyloxy)picolinaldehyde in place of picolinaldehyde to give the title compound. ESI-MS m/z 359 (M+H)+.
Step 3: Synthesis of tert-butyl 3-((2R)-2-(2-(5-(benzyloxy)pyridin-2-yl)-2-((tert- butoxycarbonyl)amino)acetamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro-2-methoxybenzoate.
Figure imgf000147_0001
[00388] By following General Method C, tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6R)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro-2-methoxybenzoate was treated with LiHMDS, and then coupled with lithium 2-(5-(benzyloxy)pyridin-2-yl)-2-((tert- butoxycarbonyl)amino)acetate from the above reaction in the presence of HATU and NMM, yielding the title compound. ESI-MS m/z 788 (M+H)+.
Step 4: Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5- hydroxypyridin-2-yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid.
Figure imgf000147_0002
[00389] In a similar manner to the synthesis of Example 7 utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonylchloride in place of pyridine-3-sulfonyl chloride, the title compound was prepared. ESI-MS m/z 544 (M+H)+. EXAMPLE 129: (3R)-3-(3-chloro-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-6- hydroxyhexanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000148_0001
[00390] The title compound was a byproduct isolated as a mixture of isomers (more polar) by reverse phase HPLC (Gilson), from the final Step in Example 122. ESI-MS m/z 539.2 (M+H)+. EXAMPLE 130: (3R)-3-(3-chloro-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-6- hydroxyhexanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000148_0002
[00391] The title compound was a byproduct isolated as a single isomer (less polar) by reverse phase HPLC (Gilson), from the final step in Example 122. ESI-MS m/z 539.2 (M+H)+.
EXAMPLE 131: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000148_0003
[00392] In a similar manner to the synthesis of Example 124, utilizing 4-fluoroethyl-2,3- dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 611/613 (MH/MH+2)+. EXAMPLE 132: (3R)-3-(2-(5-aminopyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000149_0001
Step 1. Synthesis of 6-(1,3-dioxolan-2-yl)pyridin-3-amine.
Figure imgf000149_0002
[00393] 5-Nitropicolinaldehyde (9.13 g, 60 mmol) in toluene (400 mL) was reacted with ethylene glycol (22.5 mL, 400 mmol) in the presence of toluenesulfonic acid monohydrate (570 mg, 3 mmol) at reflux for 5 h. The reaction mixture was cooled to RT, washed with aqueous NaHCO3, water, brine, dried over Na2SO4, concentrated in vacuo to afford the crdue product, which was dissolved in EtOH (420 mL), hydrogenated in the presence of 10% Pd/C (1.5 g) at RT overnight. The reaction mixture was filtered through a pad of Celite, the filtrate was concentrated in vacuo to afford the tiltle compound, 9.6 g. ESI-MS m/z 167 (M+H)+.
Step 2. Synthesis of benzyl (6-formylpyridin-3-yl)carbamate.
Figure imgf000149_0003
[00394] To the product from Step 1 (4.32 g, 26 mmol) in THF (120 mL) at 0 oC was added pyridine (9.7 mL, 120 mmol), followed by dropwise addition of benzyl chloroformate (4.9 mL, 33.8 mmol), after 1 h at RT, added more benzyl chloroformate (1.4 mL). The reaction mixture was stirred at RT overnight, diluted with EtOAc, washed with water, brine, dried over Na2SO4, concentrated to afford a solid product, which was washed with hexane, dried in vacuo to give 7.7 g of product. This product (4.61 g, 15.4 mmol) was dissolved in THF (80 mL), treated with 1 N HCl (80 mL) at 60 oC overnight, cooled to RT, basified with solid Na2CO3 to pH ~ 10, extracted with EtOAc. The combined organic extracts were dried over Na2SO4, concentrated in vacuo to afford the crude product, which was used directly for the next step without further purification. ESI-MS m/z 257 (M+H)+. Step 3. Synthesis of lithium 2-(5-(((benzyloxy)carbonyl)amino)pyridin-2-yl)-2-((tert- butoxycarbonyl)amino)acetate.
Figure imgf000150_0001
[00395] By following the same procedures as described in Step 1 of Example 37, except in Step 1d, after hydrolysis with LiOH, the reaction mixture was concentrated in vacuo without acidification to yield the crude lithium salt of the amino acid, which was used directly for the next step without further purification.
Step 4. Synthesis of (3R)-3-(2-(4-boronophenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000150_0002
[00396] In a similar manner to the synthesis of Example 37, the title compound was prepared from the above product of Step 3. ESI-MS m/z 525 (M+H)+.
EXAMPLE 133: (R)-3-((2R,3R)-2-(2,3-dioxo-4-propylpiperazine-1-carboxamido)-3- hydroxybutanamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000150_0003
[00397] The title compound was prepared from D-allothreonine, 2,3-dioxo-4-propyl-1- piperazinecarbonyl chloride, and tert-butyl 3-((S)-2-chloro-2-((3aS,4S,6S,7aR)-3a,5,5-trimethyl- hexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro-2-methoxybenzoate (from Example 109), by a procedure similar to Example 8. ESI-MS m/z 509.1 (M+H)+. EXAMPLE 134: (3R)-3-(2-(2,3-dioxo-4-propylpiperazine-1-carboxamido)-2-(5-hydroxypyridin- 2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000151_0001
[00398] In a similar manner to the synthesis of Example 128 utilizing 4-propyl-2,3-dioxopiperazine- 1-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 540 (M+H)+.
EXAMPLE 135: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000151_0002
[00399] In a similar manner to the synthesis of Example 128, the title compound was prepared. ESI- MS m/z 544 (M+H)+.
EXAMPLE 136: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-fluoro-4,5- dihydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000151_0003
[00400] In a similar manner to the synthesis of Example 90, utilizing the chloride intermediate from Step 7 of Example 109 in Step 2, the title compound was prepared. ESI-MS m/z 577 (M+H)+. EXAMPLE 137: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(thiophen-3- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000152_0001
[00401] The title compound was prepared from (R)-3-thienylglycine and 3-((2S)-2-chloro-2- ((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 515.1 (M+H)+.
EXAMPLE 138: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(thiophen-3- yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000152_0002
[00402] The title compound was prepared from (R)-3-thienylglycine and tert-butyl 3-((S)-2-chloro- 2-((3aS,4S,6S,7aR)-3a,5,5-trimethyl-hexahydro-4,6-methanobenzo[d][1,3,2]dioxa-borol-2-yl)ethyl)- 6-fluoro-2-methoxybenzoate (from Example 109), by a procedure similar to Example 8. ESI-MS m/z 533.1 (M+H)+.
EXAMPLE 139: (R)-3-((S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(thiophen-3- yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000152_0003
[00403] The title compound was isolated by reverse phase HPLC (Gilson) as the less polar isomer in Example 140. ESI-MS m/z 533.1 (M+H)+. EXAMPLE 140: (3R)-3-(2-(5,6-dihydroxypyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000153_0001
Step 1: Synthesis of lithium 2-((tert-butoxycarbonyl)amino)-2-(5,6-dimethoxypyridin-2- yl)acetate.
Figure imgf000153_0004
[00404] In a similar manner to the synthesis of Example 56, utilizing 5,6-dimethoxypicolinaldehyde in place of picolinaldehyde, the title compound was prepared. ESI-MS m/z 313 (M+H)+.
Step 2: Synthesis of (3R)-3-(2-(5,6-dihydroxypyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000153_0002
[00405] In a similar manner to the synthesis of Example 128, utilizing 4-ethyl-2,3-dioxopiperazine- 1-carbonyl chloride in place of 4-propyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 542 (M+H)+.
EXAMPLE 141: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(pyridin-3- yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000153_0003
[00406] In a similar manner to the synthesis of Example 56 utilizing tert-butyl 3-((2S)-2-chloro-2- ((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro- 2-methoxybenzoate in place of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, the title compound was prepared. ESI-MS m/z 528 (M+H)+.
EXAMPLE 142: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(thiophen-2- yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000154_0001
[00407] The title compound was prepared from 2-thienylglycine and tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethyl-hexahydro-4,6-methanobenzo[d][1,3,2]dioxa-borol-2-yl)ethyl)-6- fluoro-2-methoxybenzoate (from Example 109), by a procedure similar to Example 8. ESI-MS m/z 533.2 (M+H)+.
EXAMPLE 143: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4-hydroxy-3- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000154_0002
EXAMPLE 144: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4-methoxy-3- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000154_0003
[00408] In a similar manner to the synthesis of Example 37, utilizing 5-formyl-2- methoxybenzenesulfonamide in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, Example 143 was isolated as the first eluting peak, and Example 144 was isolated as the second eluting peak by reversed phase HPLC. ESI-MS m/z 587 (M+H)+.
EXAMPLE 145: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid
Figure imgf000155_0001
[00409] In a similar manner to the synthesis of Example 135 utilizing tert-butyl 3-((2S)-2-chloro-2- ((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro- 2-methoxybenzoate in place of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, the title compound was prepared. ESI-MS m/z 562 (M+H)+.
EXAMPLE 146: (R)-3-((2R,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- methoxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000155_0002
[00410] The title compound was prepared from O-methyl-D-threonine and 3-((2S)-2-chloro-2- ((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 491.2 (M+H)+.
EXAMPLE 147: (R)-3-((2S,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- methoxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000155_0003
[00411] The title compound was isolated by reverse phase HPLC (Gilson) as the more polar isomer from the last Step of Example 146. ESI-MS m/z 491.1 (M+H)+. EXAMPLE 148: (3R)-3-(2-(6-aminopyridin-3-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000156_0001
Step 1: Synthesis of benzyl (5-formylpyridin-2-yl)carbamate.
Figure imgf000156_0002
[00412] To 6-aminonicotinaldehyde (2.0 g, 16.4 mmol) in tetrahydrofuran (60 mL) at 0 oC was added diisopropylethylamine (3.43 mL, 19.6 mmol, 1.2 eq), followed by benzyl chloroformate (2.76 mL, 19.6 mmol, 1.2 eq) and the reaction was stirred at RT for 18 h. The solution was concentrated and the residue purified by flash chromatography on silica gel (30% ethyl acetate/hexanes) to afford the title compound, 1.04 g. ESI-MS m/z 257 (M+H)+.
Step 2: Synthesis of (3R)-3-(2-(6-aminopyridin-3-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000156_0003
[00413] In a similar manner to the synthesis of Example 134, utilizing 4-ethyl-2,3-dioxopiperazine- 1-carbonyl chloride in place of 4-propyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 525 (MH)+. EXAMPLE 149: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-fluoro-3,4- dihydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000157_0001
[00414] In a similar manner to the synthesis of Example 70, utilizing the chloride intermadiate from Step 7 of Example 109 in Step 2, the title compound was prepared. ESI-MS m/z 577 (M+H)+.
EXAMPLE 150: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-chloro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000157_0002
[00415] In a similar manner to the synthesis of Example 134 utilizing 4-ethyl-2,3-dioxopiperazine- 1-carbonyl chloride in place of 4-propyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 560 (M+H)+.
EXAMPLE 151: (3R)-3-(2-(3-chloro-5-hydroxypyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000157_0003
[00416] In a similar manner to the synthesis of Example 135 utilizing tert-butyl 3-((2S)-2-chloro-2- ((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro- 2-methoxybenzoate in place of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, the title compound was prepared. ESI-MS m/z 578 (M+H)+. EXAMPLE 152: (3R)-3-(2-(2-aminothiazol-5-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000158_0001
[00417] In a similar manner to the synthesis of Example 51, utilizing the chloride intermediate from Step 7 of Example 109 in Step 2, the title compound was prepared. ESI-MS m/z 549 (M+H)+. EXAMPLE 153: (3R)-3-(2-(2-aminothiazol-5-yl)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000158_0002
[00418] In a similar manner to the synthesis of Example 152, utilizing 4-fluoroethyl-2,3- dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 567 (M+H)+.
EXAMPLE 154: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5- (methylsulfonamido)pyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000158_0003
Figure imgf000159_0001
[00419] The intermediate from Step 4 of Example 132 (528 mg, 0.6 mmol) in MeOH (30 mL) was hydrogenated in the presence of 10% Pd/C (106 mg) and 0.2 mL of dioxane solution of 4 M HCl at RT for 3 h. The reaction mixture was filtered, the filtrate was concentrated in vacuo. The crude product was dissolved in DCM (20 mL). To this solution was added at 0 oC iPr2NEt (0.32 mL, 1.8 mmol), followed by methanesulfonyl chloride (0.055 mL, 0.72 mmol). The reaction mixture was stirred at RT for 1 h, added more methanesulfonyl chloride (0.15 mL) and a catalytic amount of 4- DMAP. After additional 2 h at RT, the reaction mixture was washed with water, brine, dried over Na2SO4, concentrated in vacuo to afford the crude product, which was subjected to the General Method A by treatment with BBr3 to afford the title compound. ESI-MS m/z 603 (M+H)+.
EXAMPLE 155: (R)-3-((S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-4- hydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000159_0002
EXAMPLE 156: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-4- hydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000159_0003
[00420] In a similar manner to the synthesis of Example 5, utilizing 2-amino-2-(3-fluoro-4- methoxyphenyl)acetic acid in place of 2-amino-2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)acetic acid in Step 4, and utilizing BBr3 in the final deprotection reaction, the title compounds, Example 155 and Example 156 were separated by reversed phase HPLC as the first eluting peak and the second eluting peak respectively. ESI-MS m/z 543 (M+H)+.
EXAMPLE 157: (3R)-3-((3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4,4,4-trifluoro-3- hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000160_0001
[00421] The title compound was prepared as a mixture of epimers from (2R,3S)-2-amino-4,4,4- trifluoro-3-hydroxybutanoic acid (Cho, J. et al. Tetrahedron Lett.2015, 56, 127–131) and 3-((2S)-2- chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 531.1 (M+H)+.
EXAMPLE 158: (R)-3-((2R,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4,4,4-trifluoro- 3-hydroxybutanamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000160_0002
[00422] The title compound was prepared from (2R,3S)-2-amino-4,4,4-trifluoro-3-hydroxybutanoic acid (Cho, J. et al. Tetrahedron Lett.2015, 56, 127–131) and tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethyl-hexahydro-4,6-methanobenzo[d][1,3,2]dioxa-borol-2-yl)ethyl)-6- fluoro-2-methoxybenzoate (from Example 109), by a procedure similar to Example 8. ESI-MS m/z 549.1 (M+H)+.
EXAMPLE 159: (R)-3-((2S,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4,4,4-trifluoro- 3-hydroxybutanamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000160_0003
[00423] The title compound was isolated by reverse phase HPLC (Gilson) as the less polar isomer in the last step of Example 158. ESI-MS m/z 549.1 (M+H)+.
EXAMPLE 160: (R)-3-((S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-4- hydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000161_0001
EXAMPLE 161: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-4- hydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000161_0002
[00424] In a similar manner to the synthesis of Example 155 and Example 156, utilizing the chloride intermediate from Step 7 of Example 109, Example 160 and Example 161 were separated by reversed phase HPLC as the first eluting peak and the second eluting peak respectively. ESI-MS m/z 561 (M+H)+.
EXAMPLE 162: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoropyridin-2- yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000161_0003
[00425] In a similar manner to the synthesis of Example 56 utilizing lithium 2-((tert- butoxycarbonyl)amino)-2-(3-fluoropyridin-2-yl)acetate in place of lithium 2-((tert- butoxycarbonyl)amino)-2-(pyridin-2-yl)acetate, the title compound was prepared. ESI-MS m/z 528 (M+H)+. EXAMPLE 163: (R)-3-((2R,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4,4-difluoro-3- hydroxybutanamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000162_0001
[00426] The title compound was prepared from (2R,3S)-2-amino-4,4-difluoro-3-hydroxybutanoic acid (Cho, J. et al. Tetrahedron Lett.2015, 56, 127–131) and tert-butyl 3-((S)-2-chloro-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethyl-hexahydro-4,6-methanobenzo[d][1,3,2]dioxa-borol-2-yl)ethyl)-6- fluoro-2-methoxybenzoate (from Example 109), by a procedure similar to Example 8. ESI-MS m/z 531.1 (M+H)+.
EXAMPLE 164: (R)-3-((2S,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4,4-difluoro-3- hydroxybutanamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000162_0002
[00427] The title compound was isolated by reverse phase HPLC (Gilson) as the less polar isomer in the last step of Example 163. ESI-MS m/z 531.1 (M+H)+.
EXAMPLE 165: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(thiazol-4- yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000162_0003
[00428] In a similar manner to the synthesis of Example 152, the title compound was prepared from 2-((tert-butoxycarbonyl)amino)-2-(thiazol-4-yl)acetic acid. ESI-MS m/z 534 (M+H)+. EXAMPLE 166: (R)-3-((S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-hydroxy-4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000163_0001
EXAMPLE 167: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-hydroxy-4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000163_0002
[00429] In a similar manner to the synthesis of Example 37, utilizing 4-formyl-2- methoxybenzenesulfonamide in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compounds, Example 166 and Example 167 were separated by reversed phase HPLC as the first eluting peak and the second eluting peak, respectively. ESI-MS m/z 604 (M+H)+.
EXAMPLE 168: (R)-3-((S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-methoxy-4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000163_0003
EXAMPLE 169: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-methoxy-4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000164_0001
[00430] In a similar manner to the synthesis of Example 166 and Example 167, utilizing BCl3 in the final deprotection reaction in place of BBr3, the title compounds, Example 168 and Example 169 were separated by reversed phase HPLC as the first eluting peak and the second eluting peak respectively. ESI-MS m/z 618 (M+H)+.
EXAMPLE 170: (R)-3-((R)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(3- hydroxy-4-sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000164_0002
EXAMPLE 171: (R)-3-((S)-2-(4-(2-bromoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(3- hydroxy-4-sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000164_0003
EXAMPLE 172: (R)-3-((R)-2-(4-(2-bromoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(3- hydroxy-4-sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000165_0001
[00431] In a similar manner to the synthesis of Example 166 and Example 167, utilizing 4- fluoroethyl- 2,3-dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride, Example 170, Example 171, and Example 172 were separated by reversed phase HPLC. Example 170, ESI-MS m/z 622 (M+H)+; Example 171, Example 172, ESI- MS m/z 682/684 (MH/MH+2)+.
EXAMPLE 173: (R)-3-((2R,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4,4-difluoro-3- hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000165_0002
[00432] The title compound was prepared from (2R,3S)-2-amino-4,4-difluoro-3-hydroxybutanoic acid (Cho, J. et al. Tetrahedron Lett.2015, 56, 127–131) and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5- trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. ESI-MS m/z 513.1 (M+H)+.
EXAMPLE 174: (R)-3-((2S,3S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-4,4-difluoro-3- hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000165_0003
[00433] The title compound was isolated by reverse phase HPLC (Gilson) as the less polar isomer in the last step of Example 173. ESI-MS m/z 513.1 (M+H)+. EXAMPLE 175: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-6,7-difluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000166_0001
Step 1. Synthesis of tert-butyl 3-bromo-5,6-difluoro-2-hydroxybenzoate.
Figure imgf000166_0002
[00434] To a mixture of 2-bromo-4,5-difluorophenol (19.82 g, 94.8 mmol) and Boc2O (25.34 g, 116 mmol) in DCM (300 mL) was added DMAP (0.636 g, 5.2 mmol) at room temperature. The reaction mixture was stirred at room temperature for 15 h. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 25.40 g (86.6%) of 2-bromo-4,5-difluorophenyl tert-butyl carbonate.
[00435] To a solution of 2-bromo-4,5-difluorophenyl tert-butyl carbonate (25.40 g, 82.2 mmol) in THF (100 mL) at -78 oC under argon was added freshly prepared LDA, n-BuLi (2.5 M in hexane, 40 mL, 100 mmol) was added dropwise to a solution of DIPA (14 mL, 99.9 mmol) in THF (100 mL) at - 78 oC under argon and the resulting solution was stirred at -78 oC for 1 h, via cannula. The reaction mixture was allowed to slowly warm to room temperature overnight and then quenched with 1 N HCl (200 mL), extracted with ethyl acetate (3x). The combined organic phase was dried over Na2SO4. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 22.23 g (87.5%) of tert-butyl 3-bromo-5,6-difluoro-2-hydroxybenzoate.
Step 2. Synthesis of tert-butyl 3-bromo-5,6-difluoro-2-methoxybenzoate.
Figure imgf000166_0003
[00436] A mixture of tert-butyl 3-bromo-5,6-difluoro-2-hydroxybenzoate (18.63 g, 60.3 mmol), dimethyl sulfate (11 mL, 116 mmol), and K2CO3 (17.05 g, 123 mmol) in acetone (150 mL) was stirred at 80 oC for 62 h. After cooling to room temperature, the reaction mixture was filtered, washed with ethyl acetate. After the filtrate was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 19.11 g (98%) of tert-butyl 3-bromo-5,6-difluoro-2-methoxybenzoate. ESI-MS m/z 266.9, 268.9 (M-56)+.
Step 3. Synthesis of tert-butyl 2,3-difluoro-6-methoxy-5-(((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)methyl)benzoate
Figure imgf000167_0001
[00437] A mixture of tert-butyl 3-bromo-5,6-difluoro-2-methoxybenzoate (19.05 g, 58.95 mmol), bis[(+)-pinanediolato]diboron (28.04 g, 78.30 mmol), KOAc (18.46 g, 188 mmol), and
Pd(dppf)Cl2·DCM (2.36 g, 2.89 mmol) in DMF (130 mL) was stirred at 100 oC under argon for 18 h. After cooling to room temperature, the reaction mixture was quenched with water, filtered through Celite, extracted with ethyl acetate (3x). The combined organic phase was dried over Na2SO4. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 25.10 g of tert-butyl 2,3-difluoro-6-methoxy-5-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate. ESI-MS m/z 867.4 (2M+Na)+.
[00438] To a solution of chloroiodomethane (21 mL, 288 mmol) in THF (200 mL) at -78 oC under argon was added i-PrMgCl·LiCl (1.3 M in THF, 100 mL, 130 mmol) dropwise over 40 min. The resulting mixture was stirred at -78 oC for an additional hour and then a solution of tert-butyl 2,3- difluoro-6-methoxy-5-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate (25.10 g) in THF (60 mL) was added dropwise over 25 min. After the reaction mixture was stirred at -78 oC for 2 h, ZnCl2 (1.0 M in diethyl ether, 90 mL, 90 mmol) was added dropwise over 20 min. The reaction mixture was then allowed to slowly warm to room temperature overnight. The mixture was cooled to -30 oC and quenched with aqueous NH4Cl (200 mL), extracted with ethyl acetate (3x). The combined organic phase was dried over Na2SO4. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 24.88 g (96%) of tert-butyl 2,3-difluoro-6-methoxy-5-(((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)methyl)benzoate. ESI-MS m/z 459.2 (M+Na)+.
Step 4. Synthesis of tert-butyl 3-((S)-2-chloro-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5,6-difluoro-2-methoxybenzoate.
Figure imgf000168_0001
[00439] The Matteson reaction was carried out as described in Example 16 Step 6 by using tert- butyl 2,3-difluoro-6-methoxy-5-(((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)methyl)benzoate as the substrate to afford tert-butyl 3-((S)-2- chloro-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl)ethyl)-5,6-difluoro-2-methoxybenzoate. ESI-MS m/z 507.1 (M+Na)+.
Step 5. Synthesis of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4- ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5,6-difluoro-2- methoxybenzoate.
Figure imgf000168_0002
[00440] The amide formation was carried out as described in Example 16 Step 7, by using tert-butyl 3-((S)-2-chloro-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5,6-difluoro-2-methoxybenzoate as the substrate to afford tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5,6-difluoro-2-methoxybenzoate. ESI-MS m/z 923.3 (M+H)+. Step 6. Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-6,7-difluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000169_0001
[00441] The full deprotection of tert-butyl 3-((2R)-2-(2-(2-(((benzyloxy)carbonyl)amino)thiazol-4- yl)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-5,6-difluoro-2- methoxybenzoate was carried out as described in General Method A with BBr3 to afford (3R)-3-(2-(2- aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-6,7-difluoro-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid. ESI-MS m/z 567.1 (M+H)+. EXAMPLE 176: (R)-3-((S)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000169_0002
[00442] The title compound was prepared according to the method of Example 135 and isolated as the first eluting peak using a Zorbax column from Agilent Technologies (SB-C18 Prep HT column 30 x 150mm 5-micron) 10%-30% CH3CN-H2O + 0.1% trifluoroacetic acid, flow rate: 45 mL/min, gradient time: 12 min. ESI-MS m/z 544 (M+H)+. EXAMPLE 177: (R)-3-((R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000170_0001
[00443] The title compound was prepared according to the method of Example 135 and isolated as the second eluting peak using a Zorbax column from Agilent Technologies (SB-C18 Prep HT column 30 x 150mm 5-micron) 10%-25% CH3CN-H2O + 0.1% trifluoroacetic acid, flow rate: 45 mL/min, gradient time: 15 min.. ESI-MS m/z 544 (M+H)+.
EXAMPLE 178: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5-hydroxy-3- methylpyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000170_0002
[00444] In a similar manner to the synthesis of Example 134 utilizing 4-ethyl-2,3-dioxopiperazine- 1-carbonyl chloride in place of 4-propyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 540 (M+H)+.
EXAMPLE 179: (3R)-3-(2-(3-fluoro-5-hydroxypyridin-2-yl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000170_0003
[00445] In a similar manner to the synthesis of Example 134 utilizing 4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carbonyl chloride in place of 4-propyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 562 (M+H)+.
EXAMPLE 180: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-6,7-difluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000171_0001
[00446] In a similar manner to the synthesis of Example 37, utilizing the chloride intermadiate from Step 4 of Example 175 in Step 2, the title compound was prepared. ESI-MS m/z 611/613
(MH/MH+2)+.
EXAMPLE 181: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4- sulfamoylphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000171_0002
[00447] In a similar manner to the synthesis of Example 102, utilizing the chloride intermediate from Step 7 of Example 109 in Step 2, the title compound was prepared.. ESI-MS m/z 606 (M+H)+. EXAMPLE 182: (3R)-7-fluoro-3-(2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000171_0003
[00448] In a similar manner to the synthesis of Example 103, utilizing the chloride intermediate from Step 7 of Example 109 in Step 2, the title compound was prepared.. ESI-MS m/z 624 (M+H)+. EXAMPLE 183: (3R)-7-fluoro-3-(2-(3-fluoro-5-hydroxypyridin-2-yl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000172_0001
[00449] In a similar manner to the synthesis of Example 179, utilizing tert-butyl 3-((2S)-2-chloro-2- ((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro- 2-methoxybenzoate in place of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, the title compound was prepared. ESI-MS m/z 580 (M+H)+.
EXAMPLE 184: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-5,7-difluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000172_0002
[00450] In a similar manner to the synthesis of Example 5, the title compound was prepared from the difluoro-substituted chloride intermediate (which was prepared according to the reported procedures, WO2015/179308) by following the General Method C and General Method A. ESI-MS m/z 567 (M+H)+. EXAMPLE 185: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-5,7-difluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000173_0001
[00451] In a similar manner to the synthesis of Example 37, the title compound was prepared from the difluoro-substituted chloride intermediate (which was prepared according to the reported procedures, WO2015/179308) by following the General Method C and General Method A. ESI-MS m/z 611/613 (MH/MH+2)+.
EXAMPLE 186: (3R)-3-(2-(4-carbamoylphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000173_0002
Step 1. Synthesis of tert-butyl (tert-butoxycarbonyl)(4-cyanobenzyl)carbamate.
Figure imgf000173_0003
[00452] To a suspension of NaH (60%, 2.5 g, 61.6 mmol( in THF (100 mL) was added at -5 oC to - 10 oC 4-cyanobenzyl bromide (10 g, 51 mmol), followed by di-tert-butyl iminocarbonate (12.82 g, 59 mmol) in THF (30 mL) dropwise over 15 min. The reaction mixture was stirred at RT overnight, quenched with ice-water, extracted with EtOAc. The combined organic extracts were washed with water, brine, dried over Na2SO4, concentrated in vacuo to afford the crude product, which was washed with hexane, and dried in vacuo, 15.7 g. ESI-MS m/z 333 (M+H)+. Step 2. Synthesis of tert-butyl 2-((tert-butoxycarbonyl)amino)-2-(4-cyanophenyl)acetate.
Figure imgf000174_0001
[00453] To the above product (6.8 g, 20.5 mmol) in THF (160 mL) was added at -78 oC LDA (2.0 M, 15 mL, 30 mmol) dropwise under Argon. After the addition was complete, The reaction mixture was stirred at -78 oC for 1 h 45 min, quenched with 1 N HCl, extracted with EtOAc. The combined organic extracts were washed with brine, dried over Na2SO4, concentrated in vacuo to afford the crdue product. The crude product was purified by flash chromatography on silica gel (hexane-EtOAc, 20:1- 1:1) to afford the title compound, 4.9 g. ESI-MS m/z 333 (M+H)+.
Step 3. Synthesis of 2-((tert-butoxycarbonyl)amino)-2-(4-carbamoylphenyl)acetic acid.
Figure imgf000174_0002
[00454] The above product (2 g, 6 mmol) in dioxane (54 mL) was treated with 4 N NaOH in MeOH (6 mL, 24 mmol) at reflux for 3.5 h. The reaction mixture was cooled to 0 oC, water was added, and the resulting mixture was acidified with 1 N HCl to pH ~ 9, then added a THF (8 mL) solution of Boc2O (2.18 g, 10 mmol). The reaction mixture was stirred at RT for 1.5 h, concentrated, extracted with diethyl ether. The aqueous was acidified with 1 N HCl to pH ~ 2, extracted with EtOAc. The organic extracts were combined, dried over Na2SO4, concentrated in vacuo to afford the title compound, 1.6 g. ESI-MS m/z 295 (M+H)+.
Step 4. Synthesis of (3R)-3-(2-(4-boronophenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000174_0003
[00455] In a similar manner to the synthesis of Example 6, utilizing 4-ethyl-2,3-dioxopiperazine-1- carbonyl chloride in place of of ethyl isocyanate in Step 3, the title compound was prepared from the above acid. ESI-MS m/z 552 (M+H)+. EXAMPLE 187: (3R)-3-(2-(4-carbamoylphenyl)-2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000175_0001
[00456] In a similar manner to the synthesis of Example 186, utilizing 4-fluoroethyl-2,3- dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 4, the title compound was prepared. ESI-MS m/z 570 (M+H)+.
EXAMPLE 188: (R)-3-((S)-2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000175_0002
EXAMPLE 189: (R)-3-((R)-2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000175_0003
[00457] In a similar manner to the synthesis of Example 38 and Example 39, the title compounds, Example 188 and Example 189, were prepared by separation of diastereomeric mixture of Example 124 using a Zorbax column, Example 188 was isolated as the first eluting peak, Example 189 isolated as the second eluting peak. ESI-MS m/z 593/595 (MH/MH+2)+. EXAMPLE 190: (R)-3-((R)-2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000176_0001
[00458] In a similar manner to the preparation of Example 39 and Example 189, the title compound was isolated from the diastereomeric mixture of Example 37 using a Zorbax column, as the second eluting peak. ESI-MS m/z 575/577 (MH/MH+2)+.
EXAMPLE 191: (3R)-3-(2-((R)-4-ethyl-6-methyl-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid
Figure imgf000176_0002
[00459] In a similar manner to the synthesis of Example 134 utilizing (R)-4-ethyl-6-methyl-2,3- dioxopiperazine-1-carbonyl chloride in place of 4-propyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 558 (M+H)+.
EXAMPLE 192: (3R)-3-(2-((S)-4-ethyl-6-methyl-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid
Figure imgf000176_0003
[00460] In a similar manner to the synthesis of Example 134 utilizing (S)-4-ethyl-6-methyl-2,3- dioxopiperazine-1-carbonyl chloride in place of 4-propyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 558 (M+H)+. EXAMPLE 193: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2-hydroxy-3-oxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000177_0001
[00461] In a similar manner to the synthesis of Example 194, Example 5 was reduced with NaBH4 to yield the title compound. ESI-MS m/z 533 (M+H)+.
EXAMPLE 194: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2-hydroxy-3- oxopiperazine-1-carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000177_0002
[00462] To a solution of Example 124 (19 mg, 0.034 mmol) in MeOH (1 mL) was added NaBH4 (3 mg, 0.079 mmol). After 5 min, the reaction mixture was diluted with 0.5 mL of water, and subjected to reversed phase HPLC purification to yield the title compound after lyopholization. ESI-MS m/z 617 (M+Na)+.
EXAMPLE 195: Ethyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylate
Figure imgf000177_0003
Step 1: Synthesis of 3-((2R)-2-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-((3aR,4R,6R,7aS)-5,5,7a-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoic acid.
Figure imgf000178_0001
[00463] To tert-butyl 3-((2R)-2-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-((3aR,4R,6R,7aS)-5,5,7a-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate 0.698 g (0.82 mmol) in dichlorormethane (9 mL) at 0 oC was added trifluoroacetic acid (0.9 mL) and warmed at RT for 2h. The reaction was concentrated, azeotroped with toluene and concentrated in vacuo to give the title compound, 0.652 g. ESI-MS m/z 800 (M+H)+.
Step 2: Synthesis of ethyl 3-((2R)-2-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-((3aR,4R,6R,7aS)-5,5,7a-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000178_0002
[00464] To 3-((2R)-2-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-((3aR,4R,6R,7aS)-5,5,7a-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoic acid 0.632 g (0.8 mmol) in N,N- dimethylformamide (6 mL) was added potassium carbonate 0.164 g (1.19 mmol, 1.5 eq), followed by iodoethane 0.127 mL (1.58 mmol, 2 eq) and stirred at RT for 5 h. The reaction was diluted with ethyl acetate, washed with water/brine, dried over sodium sulfate and concentrated. The product was purified by flash chromatography on silica gel (5% methanol/dichloromethane) using preparatory TLC plates to give the desired product, 0.201 g. ESI-MS m/z 828 (M+H)+. Step 3: Synthesis of ethyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylate.
Figure imgf000179_0001
[00465] To ethyl 3-((2R)-2-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine- 1-carboxamido)acetamido)-2-((3aR,4R,6R,7aS)-5,5,7a-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate 0.201 g (0.24 mmol) in dichloromethane (7 mL) at -78 °C was added 1M boron tribromide in dichloromethane 2.2 mL (2.2 mmol, 9 eq) and warmed at 0 °C for 30 min. The reaction was quenched with water/methanol and purified using reverse phase chromatography to give the title compound. ESI-MS m/z 572 (M+H)+. EXAMPLE 196: Ethyl (R)-3-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylate
Figure imgf000179_0002
Step 1. Synthesis of tert-butyl 3-((2R)-2-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)-3-hydroxybutanamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2] dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
[00466] tert-Butyl 3-((2R)-2-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutan-amido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate was prepared from D- allothreonine and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo- [d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8. Steps 1 and 2. Step 2. Synthesis of ethyl 3-((2R)-2-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2] dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Step 2a.
[00467] tert-Butyl 3-((2R)-2-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutan-amido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (700 mg, 1 mmol) in
dichloromethane (8 mL) was treated with trifluoroacetic acid (1 mL) at room temperature for 3 hours. The volatiles were evaporated under reduced pressure, and the residue was further dried on high vacuum overnight and used in the next step without purification.
Step 2b.
[00468] The product of Step 2a (321 mg, 0.5 mmol) in N-Methyl-2-pyrrolidone (2 mL) was treated with triethylamine (0.15 mL) and iodoethane (0.05 mL, 1.25 eq) at 50 °C, overnight, under argon. The reaction mixture was partitioned between water and diethyl ether and the aqueous phase was extracted two more times with diethyl ether. The combined organic extracts were dried over Na2SO4, filtered, and the solvent was evaporated under reduced pressure. The product was further dried on high vacuum overnight and used in the next step without purification.
Figure imgf000180_0001
Step 3. Synthesis of ethyl (R)-3-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylate.
[00469] Ethyl 3-((2R)-2-((2R,3R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3-hydroxybutan- amido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate was converted to the title compound by a procedure similar to Example 8, Step 3. ESI-MS m/z 505.2 (M+H)+. EXAMPLE 197: Ethyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- phenylacetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylate
Figure imgf000181_0001
[00470] The title compound was prepared from (R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)- 2-phenylacetic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate by a procedure similar to Example 196. ESI-MS m/z 537.2 (M+H)+.
EXAMPLE 198: (Pivaloyloxy)methyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylate
Figure imgf000181_0002
Step 1. Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3- hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00471] (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3-hydroxybutanamido)-2-hydroxy- 3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid was prepared from D-allothreonine and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6-methanobenzo-[d][1,3,2]dioxaborol- 2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 8.
Step 2. Synthesis of (pivaloyloxy)methyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)- 3-hydroxybutanamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylate.
[00472] (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-3-hydroxybutanamido)-2-hydroxy- 3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid (210 mg, 0.44 mmol) in N-Methyl-2- pyrrolidone (2 mL) was treated with sodium carbonate (106 mg, 1 mmol, 2.3 eq), sodium bromide (103 mg, 1 mmol, 2.3 eq), and chloromethyl pivalate (0.1 mL, 0.66 mmol,.1.5 eq) overnight at room temperature. The reaction mixture was cooled to 0 °C, acidified to pH 4 with 2N hydrochloric acid, and extracted with ethyl acetate. The combined organic extracts were dried over Na2SO4, filtered, and the solvent was evaporated under reduced pressure. The product was isolated by reverse phase preparative HPLC (Gilson). ESI-MS m/z 591.3 (M+H)+. EXAMPLE 199: (Pivaloyloxy)methyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- phenylacetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylate
Figure imgf000182_0001
[00473] The title compound was prepared from (R)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)- 2-phenylacetic acid and 3-((2S)-2-chloro-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo-[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, by a procedure similar to Example 198. ESI-MS m/z 539.2 [M–(Piv)+H]+.
EXAMPLE 200: (Pivaloyloxy)methyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- (3-fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylate
Figure imgf000182_0002
Step 1: Synthesis of (3R)-3-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid trifluoroacetic acid.
Figure imgf000182_0003
[00474] To tert-butyl 3-((2R)-2-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-((3aR,4R,6R,7aS)-5,5,7a-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate 0.71 g (0.83 mmol) in acetonitrile (20 mL) was added lithium bromide 0.216 g (2.5 mmol, 3 eq), followed by 33% hydrogen bromide in acetic acid (8 mL) and the mixture was heated at 50 oC for 30 min. The reaction was quenched with water/methanol, concentrated and purified using reverse phase chromatography to give the title compound, 0.23 g. ESI-MS m/z 634 (M+H)+.
Step 2: Synthesis of (pivaloyloxy)methyl (3R)-3-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4- ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylate.
Figure imgf000183_0001
[00475] To (3R)-3-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid trifluoroacetic acid 0.23 g (0.31 mmol) in acetonitrile (2.3 mL) was added a solution of sodium carbonate 0.098 g (0.92 mmol, 3 eq) and sodium bromide 0.095 g (0.92 mmol, 3 eq) in water (2.3 mL). The mixture was adjusted to pH = 8-9 and concentrated in vacuo. To this solid was added 1- methyl-2-pyrrolidinone (2.3 mL), followed by chloromethyl pivalate 0.075 mL (0.52 mmol, 1.7 eq) and stirred at RT for 18 h. Water was added to the reaction, extracted with 10% tert-butyl methyl ether/hexanes and diluted with ethyl acetate. The aqueous layer was adjusted to pH = 5.5-6 using 2N hydrochloric acid and extracted. The organic layer was washed with water/brine, dried over sodium sulfate and concentrated to give the title compound. ESI-MS m/z 748 (M+H)+.
Step 3: Synthesis of (pivaloyloxy)methyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)- 2-(3-fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylate.
Figure imgf000183_0002
[00476] To (pivaloyloxy)methyl (3R)-3-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylate under an atmosphere of argon was added anhydrous methanol (4 mL), followed by Pd(OH)2 on carbon and the mixture was stirred under 1 atmosphere of hydrogen for 1 h. The reaction was filtered through a pad of Celite, concentrated and purified using reverse phase chromatography to give the title compound. ESI-MS m/z 658 (M+H)+.
EXAMPLE 201: (Pivaloyloxy)methyl (3R)-3-(2-(5-acetoxy-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylate
Figure imgf000184_0001
Step 1: Synthesis of (pivaloyloxy)methyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)- 2-(3-fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylate.
Figure imgf000184_0002
[00477] To (pivaloyloxy)methyl (3R)-3-(2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylate under an atmosphere of argon was added anhydrous methanol (4 mL), followed by Pd(OH)2 on carbon and the mixture was stirred under 1 atmosphere of hydrogen for 1 h. The reaction was filtered through a pad of Celite and concentrated to give the title compound. ESI-MS m/z 658 (M+H)+.
Step 2: Synthesis of (pivaloyloxy)methyl (3R)-3-(2-(5-acetoxy-3-fluoropyridin-2-yl)-2-(4-ethyl- 2,3-dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylate.
Figure imgf000184_0003
[00478] To (pivaloyloxy)methyl (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylate 0.2 g (0.31 mmol) in dichloromethane (5 mL) at 0 oC was added triethylamine 0.128 mL (0.92 mmol, 3 eq), followed by acetyl chloride 0.033 mL (0.46 mmol, 1.5 eq) and the mixture was warmed at RT for 1 h. The product was quenched with water/methanol, concentrated and purified using reverse phase chromatography to give the title compound. ESI-MS m/z 700 (M+H)+.
EXAMPLE 202: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(5- hydroxypyrimidin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000185_0001
[00479] In a similar manner to the synthesis of Example 89, the title compound was prepared. ESI- MS m/z 527 (MH)+.
EXAMPLE 203: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-fluoro-4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000185_0002
[00480] In a similar manner to the synthesis of Example 37, utilizing 3-fluoro-4- formylbenzenesulfonamide in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compounds was prepared. ESI-MS m/z 606 (MH)+.
EXAMPLE 204: (3R)-3-(2-(2-fluoro-4-sulfamoylphenyl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000185_0003
[00481] In a similar manner to the synthesis of Example 37, utilizing 3-fluoro-4- formylbenzenesulfonamide in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, and utilizing 4-fluoroethyl-2,3-dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI- MS m/z 624 (MH)+.
EXAMPLE 205: (3R)-3-(2-(2-amino-5-fluorothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000186_0001
[00482] In a similar manner to the synthesis of Example 5, the title compound was prepared. ESI- MS m/z 549 (MH)+.
EXAMPLE 206: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-((S)-4-ethyl-6-methyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000186_0002
[00483] In a similar manner to the synthesis of Example 124 utilizing (S)-4-ethyl-6-methyl-2,3- dioxopiperazine-1-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 607/609 (MH/MH+2)+.
EXAMPLE 207: (3R)-3-(2-(5-acetoxy-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000186_0003
Step 1: Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000187_0001
[00484] In a similar manner to the synthesis of Example 137, the title compound was prepared. ESI- MS m/z 544 (MH)+.
Step 2: Synthesis of (3R)-3-(2-(5-acetoxy-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000187_0002
[00485] To (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5-hydroxypyridin- 2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid 0.07 g (0.13 mmol) in dichloromethane (3 mL) at 0 oC was added 0.021 mL (0.26 mmol, 2 eq) pyridine, followed by 0.016 mL (0.17 mmol, 1.3 eq) acetic anhydride and stirred at this temperature for 1 h. The reaction was warmed at RT for 1 h, quenched with water/methanol and purified using reverse phase chromatography to give the title compound. ESI-MS m/z 586 (MH)+.
EXAMPLE 208: (3R)-3-(2-((S)-4-ethyl-6-methyl-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000187_0003
[00486] In a similar manner to the synthesis of Example 145, utilizing (S)-4-ethyl-6-methyl-2,3- dioxopiperazine-1-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 576 (MH)+. EXAMPLE 209: (3R)-3-(2-(4-(3-aminopropoxy)-2-fluorophenyl)-2-(4-ethyl-2,3-dioxopiperazine- 1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000188_0001
[00487] In a similar manner to the synthesis of Example 135, utilizing 2-(4-(3- (((benzyloxy)carbonyl)amino)propoxy)-2-fluorophenyl)-2-((tert-butoxycarbonyl)amino)acetic acid in place of lithium 2-(5-(benzyloxy)-3-fluoropyridin-2-yl)-2-((tert-butoxycarbonyl)amino)acetate, the title compound was prepared. ESI-MS m/z 600 (MH)+.
EXAMPLE 210: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-4- sulfamoylphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000188_0002
[00488] In a similar manner to the synthesis of Example 37, utilizing 2-fluoro-4- formylbenzenesulfonamide in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compounds was prepared. ESI-MS m/z 606 (MH)+.
EXAMPLE 211: (3R)-3-(2-(3-fluoro-4-sulfamoylphenyl)-2-(4-(2-fluoroethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000188_0003
[00489] In a similar manner to the synthesis of Example 37, utilizing 2-fluoro-4- formylbenzenesulfonamide in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, and utilizing 4-fluoroethyl-2,3-dioxopiperazine-1-carbonyl chloride (product from Step 2 of Example 13) in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI- MS m/z 624 (MH)+.
EXAMPLE 212: (3R)-3-(2-(4-carboxyphenyl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000189_0001
[00490] In a similar manner to the synthesis of Example 5, utilizing 2-amino-2-(4-(tert- butoxycarbonyl)phenyl)acetic acid (which was prepared from tert-butyl 4-acetylbenzoate by following the reported procedures: WO2013051597) in place of 2-amino-2-(2- (((benzyloxy)carbonyl)amino)thiazol-4-yl)acetic acid in Step 4, and utilizing TMSI in the final deprotection reaction in DCM at RT for 2 h, the title compound was prepared. ESIMS m/z 553 (MH)+.
EXAMPLE 213: (3R)-3-(2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(4-(N-(2- hydroxyethyl)sulfamoyl)phenyl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000189_0002
Step 1. Synthesis of tert-butyl 3-((2R)-2-(2-(4-(N-(2-(benzyloxy)ethyl)sulfamoyl)phenyl)-2-((tert- butoxycarbonyl)amino)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000189_0003
[00491] The fully protected intermediate from the synthesis of Example 102 and Example 103 (890 mg, 1.2 mmol) was reacted with 2-benzyloxyethyl bromide (301 mg, 1.4 mmol) in the presence of K o
2CO3 (346 mg, 2.5 mmol) in acetone (8 mL) at 75-80 C for 20 h, concentrated and purified by flash chromatography on silica gel (hexane-DCM-acetone, 4:1:1-2:1:1) to afford the title compound, 250 mg. ESI-MS m/z 875 (MH)+.
Step 2. Synthesis of (3R)-3-(2-(4-(2-fluoroethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(4-(N-(2- hydroxyethyl)sulfamoyl)phenyl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000190_0003
[00492] By following the same procedures described in Step 2 of Example 6, and followed by reaction of the amine intermediate with 4-fluoroethyl-2,3-dioxopiperazine-1-carbonyl chloride as described in Step 3 of Example 13, and final deprotection with TMSI in DCM at RT for 2 h, the title compound was prepared from the above amine intermediate. ESI-MS m/z 650 (MH)+.
EXAMPLE 214: (3R)-3-(2-(5-amino-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000190_0001
[00493] In a similar manner to the synthesis of Example 148, the title compound was prepared. ESI- MS m/z 543 (MH)+.
EXAMPLE 215: (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-chloro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000190_0002
Step 1. Synthesis of tert-butyl 3-bromo-6-chloro-2-hydroxybenzoate
Figure imgf000191_0001
[00494] To a mixture of 2-bromo-5-chlorophenol (23.236 g, 121.6 mmol) and Boc2O (33.475 g, 153.4 mmol) in DCM (300 mL) was added DMAP (0.962 g, 7.87 mmol) at room temperature. The reaction mixture was stirred at room temperature for 25 h. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 37.41 g (100%) of 2-bromo-5-chlorophenyl tert- butyl carbonate. ESI-MS m/z 292.0, 293.9 (M-15)+, 251.0, 253.0 (M-56)+.
[00495] To a solution of 2-bromo-5-chlorophenyl tert-butyl carbonate (37.41 g, 121.6 mmol) in THF (250 mL) at -78 oC under argon was added freshly prepared LDA, n-BuLi (2.5 M in hexane, 57 mL, 142.5 mmol) was added dropwise to a solution of DIPA (20.0 mL, 142.7 mmol) in THF (150 mL) at -78 oC under argon and the resulting solution was stirred at -78 oC for 2 h, via cannula. The reaction mixture was allowed to slowly warm to room temperature overnight and then quenched with 2 N HCl (160 mL), extracted with ethyl acetate (3x), dried over Na2SO4, and evaporated under reduced pressure to afford 37.64 g (100%) of tert-butyl 3-bromo-6-chloro-2-hydroxybenzoate. ESI- MS m/z 251.0, 252.9 (M-56)+.
Step 2. Synthesis of tert-butyl 3-bromo-6-chloro-2-methoxybenzoate
Figure imgf000191_0002
[00496] A mixture of tert-butyl 3-bromo-6-chloro-2-hydroxybenzoate (37.64 g, 121.6 mmol), dimethyl sulfate (30.65 g, 243.0 mmol), and K2CO3 (34.40 g, 248.9 mmol) in acetone (250 mL) was stirred at 80 oC for 65 h. After cooling to room temperature, the reaction mixture was filtered, washed with ethyl acetate. After the filtrate was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 33.61 g (85.9%) of tert-butyl 3-bromo-6-chloro-2-methoxybenzoate. ESI-MS m/z 264.9, 267.0 (M-56)+. Step 3. Synthesis of tert-butyl 6-chloro-2-methoxy-3-(((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)methyl)benzoate
Figure imgf000192_0001
[00497] A mixture of tert-butyl 3-bromo-6-chloro-2-methoxybenzoate (27.23 g, 84.67 mmol), Bis[(+)-pinanediolato]diboron (40.50 g, 113.1 mmol), KOAc (27.15 g, 276.6 mmol), and
Pd(dppf)Cl2·DCM (3.60 g, 4.40 mmol) in DMF (180 mL) was stirred at 100 oC under argon for 20 h. After cooling to room temperature, the reaction mixture was quenched with water, filtered through Celite, extracted with ethyl acetate (3x). The combined organic phase was dried over Na2SO4. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 33.24 g (93.3%) of tert-butyl 6-chloro-2-methoxy-3-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate as a solid. ESI-MS m/z 863.4, 865.4 (2M+Na)+.
[00498] To a solution of chloroiodomethane (68.40 g, 387.8 mmol) in THF (250 mL) at -78 oC under argon was added i-PrMgCl·LiCl (1.3 M in THF, 164 mL, 213.2 mmol) dropwise over 50 min. The resulting mixture was stirred at -78 oC for an additional hour and then a solution of tert-butyl 6- chloro-2-methoxy-3-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)benzoate (33.14 g, 78.8 mmol) in THF (100 mL) was added dropwise over 25 min. After the reaction mixture was stirred at -78 oC for 2.5 h, ZnCl2 (1.0 M in diethyl ether, 154 mL, 154 mmol) was added dropwise over 20 min. The reaction mixture was then allowed to slowly warm to room temperature overnight. The mixture was cooled to -30 oC and quenched with aqueous NH4Cl, extracted with ethyl acetate (3x). The combined organic phase was dried over Na2SO4. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% ethyl acetate/hexanes to afford 22.37 g (65.3%) of tert-butyl 6-chloro-2-methoxy-3-(((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)methyl)benzoate. ESI-MS m/z 457.2 (M+Na)+. Step 4. Synthesis of tert-butyl 6-chloro-3-((S)-2-chloro-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate
Figure imgf000193_0001
[00499] The Matteson reaction was carried out as described in Example 16 Step 6 by using tert- butyl 6-chloro-2-methoxy-3-(((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)methyl)benzoate as the substrate to afford tert-butyl 6-chloro- 3-((S)-2-chloro-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate. ESI-MS m/z 505.2, 507.2 (M+Na)+.
Step 5. Synthesis of tert-butyl 3-((2R)-2-(2-(2-((tert-butoxycarbonyl)amino)thiazol-4-yl)-2-(4- ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-chloro-2- methoxybenzoate
Figure imgf000193_0002
[00500] The amide formation was carried out as described in Example 16 Step 7 by using tert-butyl 6-chloro-3-((S)-2-chloro-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate as the substrate to afford tert-butyl 3-((2R)-2-(2-(2-((tert-butoxycarbonyl)amino)thiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-chloro-2-methoxybenzoate. ESI-MS m/z 887.4 (M+H)+. Step 6. Synthesis of (3R)-3-(2-(2-aminothiazol-4-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-7-chloro-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000194_0001
[00501] The full deprotection of tert-butyl 3-((2R)-2-(2-(2-((tert-butoxycarbonyl)amino)thiazol-4- yl)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-chloro-2-methoxybenzoate was carried out as described in General Method A with BBr3 to afford (3R)-3-(2-(2-aminothiazol-4- yl)-2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-7-chloro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid. ESI-MS m/z 565.1 (M+H)+.
EXAMPLE 216: (3R)-7-chloro-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000194_0002
[00502] In a similar manner to the synthesis of Example 145, utilizing tert-butyl 6-chloro-3-((2S)-2- chloro-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate in place of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro-2-methoxybenzoate, the title compound was prepared. ESI-MS m/z 578 (MH)+. EXAMPLE 217: (3R)-7-chloro-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000195_0001
[00503] In a similar manner to the synthesis of Example 37, utilizing tert-butyl 6-chloro-3-((S)-2- chloro-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2- yl)ethyl)-2-methoxybenzoate (synthesis described in Example 215) in Step 2, the title compound was prepared. ESI-MS m/z 609/611/613 (MH/MH+2/MH+4)+.
EXAMPLE 218: (3R)-3-(2-((S)-4,6-diethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5- hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid.
Figure imgf000195_0002
[00504] In a similar manner to the synthesis of Example 192, utilizing (S)-4,6-diethyl-2,3- dioxopiperazine-1-carbonyl chloride in place of (S)-4-ethyl-6-methyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 572 (MH)+.
EXAMPLE 219: (3R)-3-(2-(3-fluoro-5-hydroxypyridin-2-yl)-2-(4-oxo-1,4-dihydropyridine-3- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000195_0003
Step 1: Synthesis of tert-butyl 3-((2R)-2-(2-(5-(benzyloxy)pyridin-2-yl)-2-(4-oxo-1,4- dihydropyridine-3-carboxamido)acetamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000196_0001
[00505] To tert-butyl 3-((2R)-2-(2-amino-2-(5-(benzyloxy)pyridin-2-yl)acetamido)-2-((3aS,4S,6S)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate hydrogen chloride 0.29 g (0.39 mmol) in N,N-dimethylformamide (5 mL) was added triethylamine 0.17 mL (1.18 mmol, 3 eq), HATU 0.17 g (0.43 mmol, 1.1 eq), followed by 4-oxo-1,4- dihydropyridine-3-carboxylic acid 0.07 g (0.47 mmol, 1.2 eq) and was stirred at rt for 18 h. The reaction was diluted with ethyl acetate, washed with 0.5 M aq. hydrogen chloride, water, 0.5 M sodium carbonate, dried over sodium sulfate and concentrated to afford the title compound. ESI-MS m/z 809 (MH)+.
Step 2: Synthesis of tert-butyl 3-((2R)-2-(2-(3-fluoro-5-hydroxypyridin-2-yl)-2-(4-oxo-1,4- dihydropyridine-3-carboxamido)acetamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate.
Figure imgf000196_0002
[00506] To tert-butyl 3-((2R)-2-(2-(5-(benzyloxy)pyridin-2-yl)-2-(4-oxo-1,4-dihydropyridine-3- carboxamido)acetamido)-2-((3aS,4S,6S)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate 0.25 g (0.31 mmol) in methanol (5 mL) under an atmosphere of argon was added a spatula tip of palladium hydroxide and stirred at RT under a hydrogen balloon for 18 h. The reaction was filtered through a pad of celite and concentrated in vacuo to afford the title compound. ESI-MS m/z 719 (MH)+. Step 3. Synthesis of (3R)-3-(2-(3-fluoro-5-hydroxypyridin-2-yl)-2-(4-oxo-1,4-dihydropyridine-3- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000197_0001
[00507] In a similar manner to the synthesis of Example 223, utilizing boron trichloride in place of boron tribromide in Step 1, the title compound was prepared. ESI-MS m/z 497 (MH)+.
EXAMPLE 220: (R)-3-((R)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2- chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000197_0002
EXAMPLE 221: (R)-3-((S)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2- chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000197_0003
Step 1. Synthesis of tert-butyl (2-(4-(chlorocarbonyl)-2,3-dioxopiperazin-1-yl)ethyl)carbamate.
Figure imgf000197_0004
[00508] By following the same procedures as described for the synthesis of 4-fluoroethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 1 and Step 2 of Example 13, the title compound was prepared from tert-butyl (2-bromoethyl)carbamate.
Step 2. (R)-3-((S)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4- dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid & (R)-3-((S)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4- dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00509] In a similar manner to the synthesis of Example 37, utilizing the above carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound, Example 238, and Example 239 were prepared by reversed phase HPLC separation using a C-18 column from Waters (XBridge Prep C18 column 30 x 100mm 5-micron), mobile phase: 5%-55% CH3CN-H2O containing 0.1% TFA, flow rate: 45 mL/min, gradient time: 12 min, Example 220 was isolated as the first eluting peak, Example 221 isolated as the second eluting peak. ESI-MS m/z 704/706 (MH/MH+2)+.
EXAMPLE 222: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-((S)-3,4- dioxooctahydropyrrolo[1,2-a]pyrazine-2-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000198_0001
[00510] In a similar manner to the synthesis of Example 37, utilizing (S)-3,4- dioxohexahydropyrrolo[1,2-a]pyrazine-2(1H)-carbonyl chloride (which was prepared from (S)- pyrrolidin-2-ylmethanamine in a similar manner to 4-fluoroethyl-2,3-dioxopiperazine-1-carbonyl chloride ) in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound, was prepared. ESI-MS m/z 587/589 (MH/MH+2)+.
EXAMPLE 223: (3R)-3-(2-((S)-3,4-dioxooctahydropyrrolo[1,2-a]pyrazine-2-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid.
Figure imgf000198_0002
[00511] In a similar manner to the synthesis of Example 135, utilizing (S)-3,4- dioxohexahydropyrrolo[1,2-a]pyrazine-2(1H)-carbonyl chloride in place of 4-ethyl-2,3- dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 556 (MH)+. EXAMPLE 224: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-((S)-4-(2-hydroxyethyl)-6-methyl- 2,3-dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000199_0001
Step 1. Synthesis of (S)-1-(2-(benzyloxy)ethyl)-5-methylpiperazine-2,3-dione
Figure imgf000199_0002
[00512] To a mixture of Boc-Ala-OSu (6.08 g, 21.2 mmol) in DCM (40 mL) was added dropwise a solution of 2-(benzyloxy)-1-ethanamine (3.38 g, 22.3 mmol) in DCM (10 mL) at 0 oC. The mixture was allowed to slowly warm to room temperature overnight. After 23 h, the reaction mixture was quenched with saturated NaHCO3, extracted with DCM (3x), dried over Na2SO4. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (120 g column) eluted with 0 to 50% ethyl acetate/hexanes to afford tert-butyl (S)-(1-((2- (benzyloxy)ethyl)amino)-1-oxopropan-2-yl)carbamate (6.87 g). ESI-MS m/z 345.2 (M+Na)+, 267.2 (M+H-56)+.
[00513] To a solution of tert-butyl (S)-(1-((2-(benzyloxy)ethyl)amino)-1-oxopropan-2-yl)carbamate (6.87 g) in THF (40 mL) was added dropwise a solution of Borane tetrahydrofuran complex solution (1.0 M in THF, 85 mL, 85 mmol) at 0 oC. The mixture was allowed to slowly warm to room temperature overnight. After 7 d, the reaction mixture was carefully quenched with MeOH at 0 oC. The mixture was then evaporated under reduced pressure to afford tert-butyl (S)-(1-((2- (benzyloxy)ethyl)amino)propan-2-yl)carbamate (6.85 g), which was used in the next step directly. ESI-MS m/z 309.3 (M+H)+. [00514] To a solution of tert-butyl (S)-(1-((2-(benzyloxy)ethyl)amino)propan-2-yl)carbamate (6.85 g), obtained as described above, and TEA (3.8 mL, 27 mmol) in DCM (50 mL) was added dropwise ethyl chlorooxoacetate (3.63 g, 26.6 mmol) at 0 oC. The reaction mixture was allowed to slowly warm to room temperature overnight and then quenched with saturated NaHCO3, extracted with DCM (3x), dried over Na2SO4, and evaporated under reduced pressure to afford ethyl (S)-2-((2- (benzyloxy)ethyl)(2-((tert-butoxycarbonyl)amino)propyl)amino)-2-oxoacetate (8.66 g), which was used in the next step directly. ESI-MS m/z 409.2 (M+H)+, 431.2 (M+Na)+.
[00515] A mixture of ethyl (S)-2-((2-(benzyloxy)ethyl)(2-((tert- butoxycarbonyl)amino)propyl)amino)-2-oxoacetate (8.66 g), obtained as described above, and 4.0 M HCl in 1,4-dioxane (60 mL) was stirred at room temperature for 3 h. The solvent was then evaporated under reduced pressure to afford ethyl (S)-2-((2-aminopropyl)(2-(benzyloxy)ethyl)amino)-2- oxoacetate. ESI-MS m/z 309.2 (M+H)+.
[00516] A mixture of ethyl (S)-2-((2-aminopropyl)(2-(benzyloxy)ethyl)amino)-2-oxoacetate, obtained as described above, and K2CO3 (6.15 g, 44.5 mmol) in CH3CN (100 mL) was stirred at room temperature for 16 h. The mixture was then filtered through Celite, washed with DCM. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 20% MeOH/ethyl acetate to afford 1.63 g (29% in 5 steps) of (S)-1-(2-(benzyloxy)ethyl)-5-methylpiperazine-2,3-dione. ESI-MS m/z 263.2 (M+H)+.
Step 2. Synthesis of (S)-4-(2-(benzyloxy)ethyl)-6-methyl-2,3-dioxopiperazine-1-carbonyl chloride
Figure imgf000200_0001
[00517] To a solution of (S)-1-(2-(benzyloxy)ethyl)-5-methylpiperazine-2,3-dione (1.63 g, 6.21 mmol) in THF (10 mL) and DCM (10 mL) were added dropwise TMSCl (1.0 mL, 7.88 mmol) and TEA (1.2 mL, 8.61 mmol) at -65 oC under argon. After 3 h, the reaction mixture was then stirred at 0 oC for an additional 1.5 h. A solution of triphosgene (0.834 g, 2.81 mmol) in THF (10 mL) was added at 0 oC. The mixture was allowed to slowly warm to room temperature overnight and then filtered, washed with THF. The filtrate was evaporated under reduced pressure to afford (S)-4-(2- (benzyloxy)ethyl)-6-methyl-2,3-dioxopiperazine-1-carbonyl chloride (2.025 g) as a solid, which was used in the next step directly. Step 3. Synthesis of tert-butyl 3-((2R)-2-(2-((S)-4-(2-(benzyloxy)ethyl)-6-methyl-2,3- dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate
Figure imgf000201_0001
[00518] A mixture of 2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)amino)-1-(2-chloro-3,4- dimethoxyphenyl)-2-oxoethan-1-aminium chloride (0.215 g, 0.31 mmol), (S)-4-(2-(benzyloxy)ethyl)- 6-methyl-2,3-dioxopiperazine-1-carbonyl chloride (0.140 g, 0.43 mmol), and DIPEA (0.2 mL, 1.15 mmol) in DCM (10 mL) was stirred at room temperature for 2.5 h. The mixture was then quenched with brine, extracted with DCM (2x), dried over Na2SO4, and evaporated under reduced pressure to afford tert-butyl 3-((2R)-2-(2-((S)-4-(2-(benzyloxy)ethyl)-6-methyl-2,3-dioxopiperazine-1- carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (0.35 g), which was used in the next step directly. ESI-MS m/z 967.4 (M+Na)+, 889.3 (M+H-56)+.
Step 4. Synthesis of (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-((S)-4-(2-hydroxyethyl)-6- methyl-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000201_0002
[00519] The full deprotection of tert-butyl 3-((2R)-2-(2-((S)-4-(2-(benzyloxy)ethyl)-6-methyl-2,3- dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate was carried out as described in General Method A with BBr3 to afford (3R)-3-(2-(2-chloro-3,4- dihydroxyphenyl)-2-((S)-4-(2-hydroxyethyl)-6-methyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid. ESI-MS m/z 605.2 (M+H)+.
EXAMPLE 225: (R)-3-((R)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid.
Figure imgf000202_0001
[00520] In a similar manner to the synthesis of Example 223, utilizing tert-butyl (2-(4- (chlorocarbonyl)-2,3-dioxopiperazin-1-yl)ethyl)carbamate in place of (S)-3,4- dioxohexahydropyrrolo[1,2-a]pyrazine-2(1H)-carbonyl, the title compound was prepared. ESI-MS m/z 559 (MH)+.
EXAMPLE 226: (R)-3-((S)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid.
Figure imgf000202_0002
[00521] In a similar manner to the synthesis of Example 223, utilizing tert-butyl (2-(4- (chlorocarbonyl)-2,3-dioxopiperazin-1-yl)ethyl)carbamate in place of (S)-3,4- dioxohexahydropyrrolo[1,2-a]pyrazine-2(1H)-carbonyl , the title compound was prepared. ESI-MS m/z 559 (MH)+. EXAMPLE 227: (R)-3-((R)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2- chloro-3,4-dihydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000203_0001
[00522] In a similar manner to the synthesis of Example 124, utilizing the above carbonyl chloride described in Step 1 of Example 221 in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared after reversed phase HPLC purification, isolated as the first eluting peak. ESI-MS m/z 608/610 (MH/MH+2)+.
EXAMPLE 228: (3R)-3-(2-(4-(2-acetamidoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2- chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000203_0002
[00523] The fully protected intermediate from the synthesis of Example 220 and Example 221 (1.6 g, 1.7 mmol) was treated with 2.0 M hydrogen chloride in diethylether (22 mL, 44 mmol) and 4.0 M hydrogen chloride in dioxane (11 mL, 44 mmol) at RT overnight, then concentrated in vacuo. To this crude amine intermediate (289 mg, 0.35 mmol) in DCM (8 mL) was added diisopropylethylamine (0.28 mL, 1.6 mmol) followed by acetyl chloride (56 mg, 0.71 mmol). The reaction mixture was stirred at RT for 1 h, washed with water, brine, dried and concentrated in vacuo. This crude product was subjected to deprotection with BBr3 by following the General Method A to afford the title compound. ESI-MS m/z 632/634 (MH/MH+2)+. EXAMPLE 229: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2-(methylsulfonamido)ethyl)- 2,3-dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000204_0001
[00524] In a similar manner to the synthesis of Example 228, utilizing methanesulfonyl chloride in place of acetyl chloride, the title compound was prepared. ESI-MS m/z 668/670 (MH/MH+2)+. EXAMPLE 230: (R)-3-((R)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000204_0002
[00525] In a similar manner to the synthesis of Example 223, utilizing tert-butyl 3-((2S)-2-chloro-2- ((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro- 2-methoxybenzoate in place of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, the title compound was prepared. ESI-MS m/z 577 (MH)+.
EXAMPLE 231: (R)-3-((S)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000204_0003
[00526] In a similar manner to the synthesis of Example 223, utilizing tert-butyl 3-((2S)-2-chloro-2- ((3aS,4S,6R)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-6-fluoro- 2-methoxybenzoate in place of tert-butyl 3-((2S)-2-chloro-2-((3aS,4S,6R)-3a,5,5-trimethylhexahydro- 4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate, the title compound was prepared. ESI-MS m/z 577 (MH)+
EXAMPLE 232: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-((R)-3,4- dioxooctahydropyrrolo[1,2-a]pyrazine-2-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000205_0001
Step 1. Synthesis of (R)-hexahydropyrrolo[1,2-a]pyrazine-3,4-dione
Figure imgf000205_0002
[00527] To a solution of (R)-1-Boc-2-(aminomethyl)pyrrolidine (5.77 g, 28.8 mmol) and TEA (4.5 mL, 32.3 mmol) in DCM (80 mL) was added dropwise methyl chlorooxoacetate (3.79 g, 30.9 mmol) at 0 oC. The reaction mixture was allowed to slowly warm to room temperature overnight and then quenched with saturated NaHCO3, extracted with DCM (3x), dried over Na2SO4, and evaporated under reduced pressure to afford tert-butyl (R)-2-((2-methoxy-2-oxoacetamido)methyl)pyrrolidine-1- carboxylate (10.35 g), which was used in the next step directly. ESI-MS m/z 309.2 (M+Na)+.
[00528] A mixture of tert-butyl (R)-2-((2-methoxy-2-oxoacetamido)methyl)pyrrolidine-1- carboxylate (10.35 g), obtained as described above, and 4.0 M HCl in 1,4-dioxane (40 mL) was stirred at room temperature for 3 h. The solvent was then evaporated under reduced pressure to afford methyl (R)-2-oxo-2-((pyrrolidin-2-ylmethyl)amino)acetate. ESI-MS m/z 187.1 (M+H)+.
[00529] A mixture of methyl (R)-2-oxo-2-((pyrrolidin-2-ylmethyl)amino)acetate, obtained as described above, and K2CO3 (12.90 g, 93.3 mmol) in CH3CN (100 mL) was stirred at room temperature for 21 h. The mixture was then filtered through Celite, washed with DCM. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (120 g column) eluted with 0 to 15% MeOH/DCM to afford 0.91 g (21% in 3 steps) of (R)- hexahydropyrrolo[1,2-a]pyrazine-3,4-dione. ESI-MS m/z 155.1 (M+H)+.
Step 2. Synthesis of (R)-3,4-dioxohexahydropyrrolo[1,2-a]pyrazine-2(1H)-carbonyl chloride [00530] To a solution of (R)-hexahydropyrrolo[1,2-a]pyrazine-3,4-dione (0.90 g, 5.8 mmol) in THF (10 mL) and DCM (10 mL) were added dropwise TMSCl (0.9 mL, 7.1 mmol) and TEA (1.0 mL, 7.2 mmol) at -65 oC under argon. After 3 h, the reaction mixture was then stirred at 0 oC for an additional 1 h. A solution of triphosgene (0.800 g, 2.7 mmol) in THF (10 mL) was added at 0 oC. The mixture was allowed to slowly warm to room temperature overnight and then filtered, washed with THF. The filtrate was evaporated under reduced pressure to afford (R)-3,4-dioxohexahydropyrrolo[1,2- a]pyrazine-2(1H)-carbonyl chloride (1.16 g), which was used in the next step directly.
Step 3. Synthesis of tert-butyl 3-((2R)-2-(2-(2-chloro-3,4-dimethoxyphenyl)-2-((R)-3,4- dioxooctahydropyrrolo[1,2-a]pyrazine-2-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate
Figure imgf000206_0001
[00531] A mixture of 2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)amino)-1-(2-chloro-3,4- dimethoxyphenyl)-2-oxoethan-1-aminium chloride (0.247 g, 0.356 mmol), (R)-3,4- dioxohexahydropyrrolo[1,2-a]pyrazine-2(1H)-carbonyl chloride (0.09 g, 0.415 mmol), and DIPEA (0.2 mL, 1.15 mmol) in DCM (10 mL) was stirred at room temperature for 3 h. The mixture was then quenched with brine, extracted with DCM (2x), dried over Na2SO4, and evaporated under reduced pressure to afford tert-butyl 3-((2R)-2-(2-(2-chloro-3,4-dimethoxyphenyl)-2-((R)-3,4- dioxooctahydropyrrolo[1,2-a]pyrazine-2-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (0.30 g), which was used in the next step directly. ESI-MS m/z 859.4 (M+Na)+, 781.3 (M+H-56)+.
Step 4. Synthesis of (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-((R)-3,4- dioxooctahydropyrrolo[1,2-a]pyrazine-2-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000206_0002
[00532] The full deprotection of tert-butyl 3-((2R)-2-(2-(2-chloro-3,4-dimethoxyphenyl)-2-((R)-3,4- dioxooctahydropyrrolo[1,2-a]pyrazine-2-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate was carried out as described in General Method A with BBr3 to afford (3R)-3-(2-(2-chloro-3,4- dihydroxyphenyl)-2-((R)-3,4-dioxooctahydropyrrolo[1,2-a]pyrazine-2-carboxamido)acetamido)-2- hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid. ESI-MS m/z 587.1 (M+H)+. EXAMPLE 233: (3R)-3-(2-(4-(3-aminopropyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro- 3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000207_0001
Step 1. Synthesis of tert-butyl 3-((2R)-2-(2-(4-(3-((tert-butoxycarbonyl)amino)propyl)-2,3- dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate
Figure imgf000207_0002
[00533] A mixture of 2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)amino)-1-(2-chloro-3,4- dimethoxyphenyl)-2-oxoethan-1-aminium chloride (0.326 g, 0.47 mmol), tert-butyl (3-(4- (chlorocarbonyl)-2,3-dioxopiperazin-1-yl)propyl)carbamate (0.20 g, 0.60 mmol), prepared as described in the Step 1 of Example 236 , and DIPEA (0.3 mL, 1.72 mmol) in DCM (15 mL) was stirred at room temperature for 3 h. The mixture was then quenched with brine, extracted with DCM (2x), dried over Na2SO4, and evaporated under reduced pressure to afford tert-butyl 3-((2R)-2-(2-(4- (3-((tert-butoxycarbonyl)amino)propyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4- dimethoxyphenyl)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (0.60 g), which was used in the next step directly. ESI-MS m/z 976.4 (M+Na)+, 854.4 (M+H-Boc)+, 798.3 (M+H-Boc-56)+.
Step 2. Synthesis of (3R)-3-(2-(4-(3-aminopropyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2- chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000208_0001
[00534] The full deprotection of tert-butyl 3-((2R)-2-(2-(4-(3-((tert-butoxycarbonyl)amino)propyl)- 2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate was carried out as described in General Method A with BBr3 to afford (3R)-3-(2-(4- (3-aminopropyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dihydroxyphenyl)acetamido)- 2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid. ESI-MS m/z 604.2 (M+H)+. EXAMPLE 234: (3R)-3-(2-((R)-4-ethyl-6-(hydroxymethyl)-2,3-dioxopiperazine-1- carboxamido)-2-(3-fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000208_0002
Step 1: Synthesis of (R)-3-(benzyloxy)-2-((tert-butoxycarbonyl)amino)propyl methanesulfonate.
Figure imgf000208_0003
[00535] To tert-butyl (R)-(1-(benzyloxy)-3-hydroxypropan-2-yl)carbamate 0.9 g (3.21 mmol) in dichloromethane (8 mL) at 0 oC was added triethylamine 0.49 mL (3.53 mmol, 1.1 eq), followed by mesyl chloride 0.27 mL (3.53 mmol, 1.1 eq) and was warmed at RT for 1 h. The reaction was washed with water/brine, dried over sodium sulfate, and concentrated to afford the title compound. ESI-MS m/z 360 (MH)+.
Step 2: Synthesis of tert-butyl (R)-(1-(benzyloxy)-3-(ethylamino)propan-2-yl)carbamate.
Figure imgf000209_0001
[00536] To (R)-3-(benzyloxy)-2-((tert-butoxycarbonyl)amino)propyl methanesulfonate 1.21 g (3.37 mmol) in tetrahydrofuran (15 mL) was added 2M ethyl amine in tetrahydrofuran (25.3 mL) (50.6 mmol, 15 eq) and the solution was stirred at RT for 7 days. The reaction was diluted with dichloromethane, washed with water/brine, dried over sodium sulfate and concentrated to afford the title compound. ESI-MS m/z 309 (MH)+.
Step 3: Synthesis of (R)-3-(benzyloxy)-N1-ethylpropane-1,2-diamine dihydrochloride.
Figure imgf000209_0002
[00537] To tert-butyl (R)-(1-(benzyloxy)-3-(ethylamino)propan-2-yl)carbamate 1.1 g (3.51 mmol) was added 4N HCl in dioxane (12 mL), stirred at RT for 2 h and concentrated in vacuo to afford the title compound. ESI-MS m/z 209 (MH)+.
Step 4: Synthesis of (R)-5-((benzyloxy)methyl)-1-ethylpiperazine-2,3-dione.
Figure imgf000209_0003
[00538] To (R)-3-(benzyloxy)-N1-ethylpropane-1,2-diamine dihydrochloride 0.98 g (3.51 mmol) in ethanol (19 mL) was added triethylamine 0.97 mL (7.01 mmol, 2 eq), followed by 0.51 mL (3.79 mmol, 1.08 eq) diethyl oxalate and the solution was heated at reflux for 18 h and concentrated. The product was
purified by flash chromatography on silica gel (4%methaol/dichloromethane) to afford the title compound. ESI-MS m/z 263 (MH)+.
Step 4: Synthesis of (R)-6-((benzyloxy)methyl)-4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride.
Figure imgf000209_0004
To (R)-5-((benzyloxy)methyl)-1-ethylpiperazine-2,3-dione 0.15 g (0.58 mmol) in tetrahydrofuran (1 mL)/dichloromethane (1 mL) at -20 oC was added chloro trimethylsilane 0.08 mL (0.64 mmol, 1.1 eq), followed by triethylamine 0.09 mL (0.7 mmol, 1.2 eq) and the mixture was warmed at 0 oC for 1 h. Triphosgene 0.07 g (0.23 mmol, 0.4 eq) in tetrahydrofuran (1 mL) was added, warmed at RT for 1h and filtered. The filtrate was concentrated, triturated with ether, filtered and dried under vacuum to afford the title compound. ESI-MS m/z 325 (MH)+. Step 5: Synthesis of (3R)-3-(2-((R)-4-ethyl-6-(hydroxymethyl)-2,3-dioxopiperazine-1- carboxamido)-2-(3-fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000210_0001
[00539] In a similar manner to the synthesis of Example 135, utilizing (R)-6-((benzyloxy)methyl)-4- ethyl-2,3-dioxopiperazine-1-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 574 (MH)+.
EXAMPLE 235: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2-(3-ethylureido)ethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000210_0002
[00540] In a similar manner to the synthesis of Example 228, utilizing ethyl isocynate in place of acetyl chloride, the title compound was prepared. ESI-MS m/z 661/663 (MH/MH+2)+.
EXAMPLE 236: (R)-3-((R)-2-(4-(3-aminopropyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2- chloro-3,4-dihydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000210_0003
Step 1. Synthesis of tert-butyl (3-(4-(chlorocarbonyl)-2,3-dioxopiperazin-1-yl)propyl)carbamate.
Figure imgf000211_0001
[00541] By following the same procedures as described for the synthesis of 4-fluoroethyl-2,3- dioxopiperazine-1-carbonyl chloride in Step 1 and Step 2 of Example 13, the title compound was prepared from tert-butyl (3-bromopropyl)carbamate.
Step 2. (R)-3-((S)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4- dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid & (R)-3-((S)-2-(4-(2-aminoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4- dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00542] In a similar manner to the synthesis of Example 124, utilizing the above carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared after reversed phase HPLC purification, isolated as the first eluting peak. ESI-MS m/z 622/624
(MH/MH+2)+.
EXAMPLE 237: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-((R)-4-ethyl-6-(hydroxymethyl)- 2,3-dioxopiperazine-1-carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000211_0002
[00543] In a similar manner to the synthesis of Example 124 utilizing (R)-6-((benzyloxy)methyl)-4- ethyl-2,3-dioxopiperazine-1-carbonyl chloride (synthesis described in Example 234) in place of 4- ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 623/625 (MH/MH+2)+. EXAMPLE 238: (3R)-3-(2-((S)-6-(2-aminoethyl)-4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- (2-chloro-3,4-dihydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000212_0001
[00544] In a similar manner to the synthesis of Example 124 utilizing benzyl (S)-(2-(1- (chlorocarbonyl)-4-ethyl-5,6-dioxopiperazin-2-yl)ethyl)carbamate (synthesis described in Example 240) in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride in Step 3, the title compound was prepared. ESI-MS m/z 636/638 (MH/MH+2)+.
EXAMPLE 239: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2-(methylamino)ethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000212_0002
Step 1. Synthesis of tert-butyl (2-(2,3-dioxopiperazin-1-yl)ethyl)(methyl)carbamate
Figure imgf000212_0003
[00545] To ethylenediamine (21.88 g, 364 mmol) was added dropwise tert-butyl N-(2-chloroethyl)- N-methylcarbamate (6.984 g, 36 mmol) under argon. The mixture was stirred at room temperature for 27 h and then quenched with brine, extracted with Et2O (2x), dried over Na2SO4, and evaporated under reduced pressure to afford 6.95 g (88.7%) of tert-butyl (2-((2- aminoethyl)amino)ethyl)(methyl)carbamate. ESI-MS m/z 218.2 (M+H)+.
[00546] A mixture of tert-butyl (2-((2-aminoethyl)amino)ethyl)(methyl)carbamate (6.95 g, 32 mmol) and diethyl oxalate (5.785 g, 39.6 mmol) in CH3CN (50 mL) was heated at 100 oC for 22 h. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (340 g column) eluted with 0 to 15% MeOH/DCM to afford 5.82 g (67%) of tert-butyl (2-(2,3-dioxopiperazin-1-yl)ethyl)(methyl)carbamate. ESI-MS m/z 294.2
(M+Na)+, 172.2 (M+H-Boc)+.
Step 2. Synthesis of tert-butyl (2-(4-(chlorocarbonyl)-2,3-dioxopiperazin-1- yl)ethyl)(methyl)carbamate
Figure imgf000213_0001
[00547] To a solution of tert-butyl (2-(2,3-dioxopiperazin-1-yl)ethyl)(methyl)carbamate (1.58 g, 5.82 mmol) in THF (10 mL) and DCM (10 mL) were added dropwise TMSCl (0.9 mL, 7.1 mmol) and TEA (1.0 mL, 7.2 mmol) at -65 oC under argon. After 3 h, the reaction mixture was then stirred at 0 oC for an additional 1 h. A solution of triphosgene (0.828 g, 2.79 mmol) in THF (10 mL) was added at 0 oC. The mixture was allowed to slowly warm to room temperature overnight and then filtered, washed with THF. The filtrate was evaporated under reduced pressure to afford tert-butyl (2-(4- (chlorocarbonyl)-2,3-dioxopiperazin-1-yl)ethyl)(methyl)carbamate (2.03 g) as a solid, which was used in the next step directly.
Step 3. Synthesis of tert-butyl 3-((2R)-2-(2-(4-(2-((tert-butoxycarbonyl)(methyl)amino)ethyl)- 2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate
Figure imgf000213_0002
[00548] A mixture of 2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)amino)-1-(2-chloro-3,4- dimethoxyphenyl)-2-oxoethan-1-aminium chloride (0.305 g, 0.44 mmol), tert-butyl (2-(4- (chlorocarbonyl)-2,3-dioxopiperazin-1-yl)ethyl)(methyl)carbamate (0.196 g, 0.587 mmol), and DIPEA (0.3 mL, 1.72 mmol) in DCM (15 mL) was stirred at room temperature for 3 h. The mixture was then quenched with brine, extracted with DCM (2x), dried over Na2SO4, and evaporated under reduced pressure to afford tert-butyl 3-((2R)-2-(2-(4-(2-((tert-butoxycarbonyl)(methyl)amino)ethyl)- 2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2- methoxybenzoate (0.50 g), which was used in the next step directly. ESI-MS m/z 976.3 (M+Na)+, 798.3 (M+H-Boc-56)+.
Step 4. Synthesis of (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2-(methylamino)ethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000214_0001
[00549] The full deprotection of tert-butyl 3-((2R)-2-(2-(4-(2-((tert- butoxycarbonyl)(methyl)amino)ethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4- dimethoxyphenyl)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate was carried out as described in General Method A with BBr3 to afford (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2- (methylamino)ethyl)-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid. ESI-MS m/z 604.2 (M+H)+.
EXAMPLE 240: (3R)-3-(2-((S)-6-(2-aminoethyl)-4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2- (3-fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000214_0002
[00550] In a similar manner to the synthesis of Example 234, utilizing benzyl tert-butyl (4- hydroxybutane-1,3-diyl)(S)-dicarbamate in place of tert-butyl (R)-(1-(benzyloxy)-3-hydroxypropan- 2-yl)carbamate in Step 1, the title compound was prepared. ESI-MS m/z 587 (MH)+.
EXAMPLE 241: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5-((2- hydroxyethyl)carbamoyl)pyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000215_0001
Step 1: Synthesis of 6-(1-((tert-butoxycarbonyl)amino)-2-ethoxy-2-oxoethyl)-5-fluoronicotinic acid.
Figure imgf000215_0002
[00551] To 6-(1-((tert-butoxycarbonyl)amino)-2-ethoxy-2-oxoethyl)-2-chloro-5-fluoronicotinic acid 2 g (5.32 mmol) in methanol (20 mL) under an atmosphere of argon was added a spatula tip of palladium hydroxide and stirred at RT under a hydrogen balloon for 18 h. The reaction was filtered through a pad of celite and concentrated in vacuo to afford the title compound. ESI-MS m/z 343 (MH)+.
Step 2: Synthesis of ethyl 2-(5-((2-(benzyloxy)ethyl)carbamoyl)-3-fluoropyridin-2-yl)-2-((tert- butoxycarbonyl)amino)acetate.
Figure imgf000215_0003
[00552] To 6-(1-((tert-butoxycarbonyl)amino)-2-ethoxy-2-oxoethyl)-5-fluoronicotinic acid 0.95 g (2.78 mmol) in dichloromethane (13 mL) was added triethylamine 1.15 mL (8.33 mmol, 3 eq), N-(3- dimethylaminopropyl)-N¢-ethylcarbodiimide hydrochloride 0.59 g (3.05 mmol, 1.1 eq), 1- hydroxybenzotriazole hydrate 0.41 g (3.06 mmol, 1.1 eq), followed by 2-(benzyloxy)ethan-1-amine ) 0.5 mL (3.33 mmol, 1.2 eq) and the reaction was stirred at RT for 18 h. The mixture was diluted with dichloromethane, washed with water/brine, dried over sodium sulfate and concentrated. The product was
purified by flash chromatography on silica gel (30% ethyl acetate/hexanes) to afford the title compound. ESI-MS m/z 476 (MH)+. Step 3: Synthesis of (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(3-fluoro-5-((2- hydroxyethyl)carbamoyl)pyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000216_0001
[00553] In a similar manner to the synthesis of Example 135, the title compound was prepared. ESI- MS m/z 615 (MH)+.
EXAMPLE 242: (R)-3-((R)-2-(2-chloro-3,4-dihydroxyphenyl)-2-(4-(2-(methylamino)ethyl)-2,3- dioxopiperazine-1-carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000216_0002
[00554] In a similar manner to the synthesis of Example 124, utilizing tert-butyl (2-(4- (chlorocarbonyl)-2,3-dioxopiperazin-1-yl)ethyl)(methyl)carbamate (synthesis described in Example 239) in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared after reversed phase HPLC purification, isolated as the first eluting peak. ESI-MS m/z 622/624 (MH/MH+2)+.
EXAMPLE 243: (3R)-3-(2-(4-(2-acetamidoethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2- chloro-3,4-dihydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000216_0003
[00555] The fully protected intermediate from the synthesis of Example 227 (1.5 g, 1.57 mmol) was treated with 2.0 M hydrogen chloride in diethylether (20 mL, 40 mmol) and 4.0 M hydrogen chloride in dioxane (10 mL, 40 mmol) at RT overnight, then concentrated in vacuo. To this crude amine intermediate (252 mg, 0.3 mmol) in DCM (12 mL) was added diisopropylethylamine (0.18 mL, 1 mmol) followed by acetic anhydride (61 mg, 0.6 mmol). The reaction mixture was stirred at RT for 1 h, washed with water, brine, dried and concentrated in vacuo. This crude product was subjected to deprotection with BBr3 by following the General Method A to afford the title compound. ESI-MS m/z 650/652 (MH/MH+2)+.
EXAMPLE 244: (3R)-3-(2-(2-chloro-3,4-dihydroxyphenyl)-2-(2,3-dioxo-4-(2- (sulfamoylamino)ethyl)piperazine-1-carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro- 2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000217_0001
[00556] In a similar manner to the synthesis of Example 243, utilizing tert-butyl
(chlorosulfonyl)carbamate in place of acetic anhydride, the title compound was prepared. ESI-MS m/z 687/689 (MH/MH+2)+.
EXAMPLE 245: (3R)-3-(2-(4-ethyl-2,2-dimethyl-5,6-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid.
Figure imgf000217_0002
[00557] In a similar manner to the synthesis of Example 135, utilizing 4-ethyl-2,2-dimethyl-5,6- dioxopiperazine-1-carbonyl chloride in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 572 (MH)+. EXAMPLE 246: (3R)-3-(2-(5-carbamoyl-3-fluoropyridin-2-yl)-2-(4-ethyl-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid.
[00558] In a similar manner to the synthesis of Example 241, utilizing (2,4- dimethoxyphenyl)methanamine in place of 2-(benzyloxy)ethan-1-amine in Step 2, the title compound was prepared. ESI-MS m/z 571 (MH)+.
EXAMPLE 247: (3R)-3-(2-(4-ethyl-2,3-dioxopiperazine-1-carboxamido)-2-(4-hydroxy-3- nitrophenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000218_0002
[00559] In a similar manner to the synthesis of Example 37, utilizing 4-methoxy-3- nitrobenzaldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared. ESI-MS m/z 570 (M+H)+.
EXAMPLE 248: (3R)-3-(2-((S)-4-(2-aminoethyl)-6-methyl-2,3-dioxopiperazine-1-carboxamido)- 2-(2-chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000218_0003
Step 1. Synthesis of tert-butyl (S)-(2-(5-methyl-2,3-dioxopiperazin-1-yl)ethyl)carbamate
Figure imgf000219_0001
Figure imgf000219_0002
Figure imgf000219_0003
[00560] To a mixture of Z-Ala-OSu (16.18 g, 50.5 mmol) in DCM (300 mL) was added dropwise tert-butyl N-(2-aminoethyl)carbamate (8.83 g, 55.1 mmol) at 0 oC. The mixture was allowed to slowly warm to room temperature overnight. After 23 h, the reaction mixture was quenched with saturated NaHCO3, extracted with DCM (3x), dried over Na2SO4. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (120 g column) eluted with 0 to 10% MeOH/DCM to afford 13.55 (73.4%) of benzyl (S)-(1-((2-((tert- butoxycarbonyl)amino)ethyl)amino)-1-oxopropan-2-yl)carbamate. ESI-MS m/z 388.2 (M+Na)+, 310.1 (M+H-56)+, 266.2 (M+H-Boc)+.
[00561] A mixture of benzyl (S)-(1-((2-((tert-butoxycarbonyl)amino)ethyl)amino)-1-oxopropan-2- yl)carbamate (13.55 g, 37.08 mmol) and 10% Pd/C (wet support, 2.08 g, 0.98 mmol) in MeOH (200 mL) was stirred under hydrogen balloon for 2 h. The mixture was then filtered, washed with MeOH. The filtrate was evaporated under reduced pressure to afford tert-butyl (S)-(2-(2- aminopropanamido)ethyl)carbamate (8.93 g), which was used in the next step directly. ESI-MS m/z 232.2 (M+H)+.
[00562] To a solution of tert-butyl (S)-(2-(2-aminopropanamido)ethyl)carbamate (4.36 g, 18.8 mmol) in THF (40 mL) was added dropwise a solution of Borane tetrahydrofuran complex solution (1.0 M in THF, 100 mL, 100 mmol) at 0 oC. The mixture was allowed to slowly warm to room temperature overnight. After 7 d, the reaction mixture was carefully quenched with MeOH at 0 oC. The mixture was then evaporated under reduced pressure to afford tert-butyl (S)-(2-((2- aminopropyl)amino)ethyl)carbamate (3.48 g), which was used in the next step directly. ESI-MS m/z 218.2 (M+H)+.
[00563] A mixture of tert-butyl (S)-(2-((2-aminopropyl)amino)ethyl)carbamate (3.48 g), obtained as described above, and diethyl oxalate (2.339 g, 16 mmol) in CH3CN (50 mL) was heated at 90 oC for 18 h. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (100 g column) eluted with 0 to 15% MeOH/DCM to afford 0.62 g (14%) of tert-butyl (S)-(2-(5-methyl-2,3-dioxopiperazin-1-yl)ethyl)carbamate. ESI-MS m/z 565.3 (2M+Na)+, 443.2 (2M+H-Boc)+, 216.1 (M+H-56)+. Step 2. Synthesis of tert-butyl (S)-(2-(4-(chlorocarbonyl)-5-methyl-2,3-dioxopiperazin-1- yl)ethyl)carbamate
Figure imgf000220_0001
[00564] To a solution of tert-butyl (S)-(2-(5-methyl-2,3-dioxopiperazin-1-yl)ethyl)carbamate (0.51 g, 1.88 mmol) in THF (6 mL) and DCM (6 mL) were added dropwise TMSCl (0.3 mL, 2.36 mmol) and TEA (0.33 mL, 2.37 mmol) at -65 oC under argon. After 3 h, the reaction mixture was then stirred at 0 oC for an additional 2 h. A solution of triphosgene (0.30 g, 1.01 mmol) in THF (10 mL) was added at 0 oC. The mixture was allowed to slowly warm to room temperature overnight and then filtered, washed with THF. The filtrate was evaporated under reduced pressure to afford tert-butyl (S)- (2-(4-(chlorocarbonyl)-5-methyl-2,3-dioxopiperazin-1-yl)ethyl)carbamate (0.66 g) as a solid, which was used in the next step directly.
Step 3. Synthesis of tert-butyl 3-((2R)-2-(2-((S)-4-(2-((tert-butoxycarbonyl)amino)ethyl)-6- methyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2- ((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)- 2-methoxybenzoate
Figure imgf000220_0002
[00565] A mixture of 2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)amino)-1-(2-chloro-3,4- dimethoxyphenyl)-2-oxoethan-1-aminium chloride (0.316 g, 0.456 mmol), tert-butyl (S)-(2-(4- (chlorocarbonyl)-5-methyl-2,3-dioxopiperazin-1-yl)ethyl)carbamate (0.20 g, 0.60 mmol), and DIPEA (0.3 mL, 1.72 mmol) in DCM (15 mL) was stirred at room temperature for 3 h. The mixture was then quenched with brine, extracted with DCM (2x), dried over Na2SO4, and evaporated under reduced pressure to afford tert-butyl 3-((2R)-2-(2-((S)-4-(2-((tert-butoxycarbonyl)amino)ethyl)-6-methyl-2,3- dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dimethoxyphenyl)acetamido)-2-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (0.53 g), which was used in the next step directly. ESI-MS m/z 976.4 (M+Na)+, 898.3 (M+H-56)+, 798.3 (M+H-Boc-56)+. Step 4. Synthesis of (3R)-3-(2-((S)-4-(2-aminoethyl)-6-methyl-2,3-dioxopiperazine-1- carboxamido)-2-(2-chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000221_0001
[00566] The full deprotection of tert-butyl 3-((2R)-2-(2-((S)-4-(2-((tert- butoxycarbonyl)amino)ethyl)-6-methyl-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4- dimethoxyphenyl)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate was carried out as described in General Method A with BBr3 to afford (3R)-3-(2-((S)-4-(2-aminoethyl)-6-methyl-2,3- dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid. ESI-MS m/z 604.2 (M+H)+.
EXAMPLE 249: (3R)-3-(2-(4-(carboxymethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2-chloro- 3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000221_0002
Step 1. Synthesis of ethyl 2-(2,3-dioxopiperazin-1-yl)acetate
Figure imgf000221_0003
[00567] A mixture of N-Beta-aminoethyl-gly-OEt 2HCl (5.37 g, 24.5 mmol), K2CO3 (12.40 g, 89.7 mmol), and diethyl oxalate (4.076 g, 27.9 mmol) in CH3CN (100 mL) was heated at 90 oC for 47 h. The mixture was then filtered through Celite, washed with DCM. After the solvent was evaporated under reduced pressure, the residue was purified by flash chromatography on silica gel (100 g column) eluted with 0 to 20% MeOH/DCM to afford 1.54 g (31%) of ethyl 2-(2,3-dioxopiperazin-1- yl)acetate. ESI-MS m/z 423.1 (2M+Na)+, 401.2 (2M+H)+, 201.1 (M+H)+.
Step 2. Synthesis of ethyl 2-(4-(chlorocarbonyl)-2,3-dioxopiperazin-1-yl)acetate
Figure imgf000222_0001
[00568] To a solution of ethyl 2-(2,3-dioxopiperazin-1-yl)acetate (1.51 g, 7.54 mmol) in THF (15 mL) and DCM (15 mL) were added dropwise TMSCl (1.2 mL, 9.45 mmol) and TEA (1.5 mL, 10.8 mmol) at -65 oC under argon. After 3 h, the reaction mixture was then stirred at 0 oC for an additional 1 h. A solution of triphosgene (1.174 g, 3.95 mmol) in THF (15 mL) was added at 0 oC. The mixture was allowed to slowly warm to room temperature overnight and then filtered, washed with THF. The filtrate was evaporated under reduced pressure to afford ethyl 2-(4-(chlorocarbonyl)-2,3- dioxopiperazin-1-yl)acetate (2.20 g), which was used in the next step directly.
Step 3. Synthesis of tert-butyl 3-((2R)-2-(2-(2-chloro-3,4-dimethoxyphenyl)-2-(4-(2-ethoxy-2- oxoethyl)-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate
Figure imgf000222_0002
[00569] A mixture of 2-(((R)-2-(3-(tert-butoxycarbonyl)-2-methoxyphenyl)-1-((3aS,4S,6S,7aR)- 3a,5,5-trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)amino)-1-(2-chloro-3,4- dimethoxyphenyl)-2-oxoethan-1-aminium chloride (0.909 g, 1.31 mmol), ethyl 2-(4-(chlorocarbonyl)- 2,3-dioxopiperazin-1-yl)acetate (0.52 g, 1.98 mmol), and DIPEA (0.9 mL, 5.17 mmol) in DCM (40 mL) was stirred at room temperature for 17 h. The mixture was then quenched with brine, extracted with DCM (2x), dried over Na2SO4, and evaporated under reduced pressure to afford tert-butyl 3- ((2R)-2-(2-(2-chloro-3,4-dimethoxyphenyl)-2-(4-(2-ethoxy-2-oxoethyl)-2,3-dioxopiperazine-1- carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5-trimethylhexahydro-4,6- methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate (1.82 g), which was used in the next step directly. ESI-MS m/z 827.3 (M+H-56)+. Step 4. Synthesis of (3R)-3-(2-(4-(carboxymethyl)-2,3-dioxopiperazine-1-carboxamido)-2-(2- chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine-8- carboxylic acid
Figure imgf000223_0001
[00570] The full deprotection of tert-butyl 3-((2R)-2-(2-(2-chloro-3,4-dimethoxyphenyl)-2-(4-(2- ethoxy-2-oxoethyl)-2,3-dioxopiperazine-1-carboxamido)acetamido)-2-((3aS,4S,6S,7aR)-3a,5,5- trimethylhexahydro-4,6-methanobenzo[d][1,3,2]dioxaborol-2-yl)ethyl)-2-methoxybenzoate was carried out as described in General Method A with BBr3 to afford (3R)-3-(2-(4-(carboxymethyl)-2,3- dioxopiperazine-1-carboxamido)-2-(2-chloro-3,4-dihydroxyphenyl)acetamido)-2-hydroxy-3,4- dihydro-2H-benzo[e][1,2]oxaborinine-8-carboxylic acid. ESI-MS m/z 605.1 (M+H)+.
EXAMPLE 250: (R)-3-((R)-2-((S)-4-(2-aminoethyl)-6-methyl-2,3-dioxopiperazine-1- carboxamido)-2-(2-chloro-3,4-dihydroxyphenyl)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000223_0002
[00571] In a similar manner to the synthesis of Example 124, utilizing tert-butyl (S)-(2-(4- (chlorocarbonyl)-5-methyl-2,3-dioxopiperazin-1-yl)ethyl)carbamate (synthesis described in Example 248) in place of 4-ethyl-2,3-dioxopiperazine-1-carbonyl chloride, the title compound was prepared after reversed phase HPLC purification, isolated as the first eluting peak. ESI-MS m/z 608/610 (MH/MH+2)+. EXAMPLE 251: (R)-3-((R)-2-(2-chloro-6-fluoro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid
Figure imgf000224_0001
Step 1. Synthesis of 2-fluoro-5-hydroxy-4-methoxybenzaldehyde.
Figure imgf000224_0002
[00572] 2-Fluoro-4,5-dimethoxybenzaldehyde (7.5 g, 40,8 mmol) in concentrated sulfuric acid (30 mL) was heated at 90 oC for 5 h, then cooled to RT, poured into ice-water, extracted with EtOAc. The organic extracts were combined, washed with brine, dried over Na2SO4, concentrated in vacuo. To the residue was added a mixed solvent of hexane-EtOAc (1:1, 50 mL). The solid was collected by filtration to afford the title compound, 4.6 g. ESI-MS m/z 171 (MH)+.
Step 2. Synthesis of 2-chloro-6-fluoro-3-hydroxy-4-methoxybenzaldehyde.
Figure imgf000224_0003
[00573] To the above product (4.6 g, 27.1 mmol) in DMF (50 mL) was added NCS (4.81 g, 36 mmol). The raction mixture was stirred at RT overnight, diluted with diethylether, washed with water, brine, dried over Na2SO4, concentrated in vacuo to afford the crdue product, 5.2 g, which was used directly for the next step without further purification. ESI-MS m/z 205/207 (MH/MH+2)+.
Step 3. Synthesis of 2-chloro-6-fluoro-3,4-dimethoxybenzaldehyde.
Figure imgf000224_0004
[00574] To the above crude product (5.2 g, 25.5 mmol) in DMF (60 mL) was added Cs2CO3 (20.8 g, 63.8 mmol) followed by iodomethane (5 mL, 80 mmol). The raction mixture was stirred at RT overnight, diluted with diethylether, washed with water, brine, dried over Na2SO4, concentrated in vacuo. The residue was purified by flash chromatography on silica gel (hexane-EtOAc, 10:1-2:1) to afford the title compound, 3 g. ESI-MS m/z 219/221 (MH/MH+2)+. Step 4. Synthesis of (R)-3-((R)-2-(2-chloro-6-fluoro-3,4-dihydroxyphenyl)-2-(4-ethyl-2,3- dioxopiperazine-1-carboxamido)acetamido)-7-fluoro-2-hydroxy-3,4-dihydro-2H- benzo[e][1,2]oxaborinine-8-carboxylic acid.
Figure imgf000225_0001
[00575] In a similar manner to the synthesis of Example 37, utilizing the above aldehyde in place of 2-chloro-3,4-dimethoxybenzaldehyde in Step 1, the title compound was prepared after reversed phase HPLC purification, isolated as the first eluting peak. ESI-MS m/z 611/613 (MH/MH+2)+.
EXAMPLE 252: (R)-3-((R)-2-(4-(3-aminopropyl)-2,3-dioxopiperazine-1-carboxamido)-2-(3- fluoro-5-hydroxypyridin-2-yl)acetamido)-2-hydroxy-3,4-dihydro-2H-benzo[e][1,2]oxaborinine- 8-carboxylic acid
Figure imgf000225_0002
[00576] In a similar manner to the synthesis of Example 135, utilizing tert-butyl (3-(4- (chlorocarbonyl)-2,3-dioxopiperazin-1-yl)propyl)carbamate in place of 4-ethyl-2,3-dioxopiperazine- 1-carbonyl chloride, the title compound was prepared. ESI-MS m/z 573(MH)+. Table 1. Example compounds.
Figure imgf000225_0003
Figure imgf000226_0001
Figure imgf000227_0001
Figure imgf000228_0001
Figure imgf000229_0001
Figure imgf000230_0001
Figure imgf000231_0001
Figure imgf000232_0001
Figure imgf000233_0001
Figure imgf000234_0001
Figure imgf000235_0001
Figure imgf000236_0001
Figure imgf000237_0001
Figure imgf000238_0001
Figure imgf000239_0001
Figure imgf000240_0001
Figure imgf000241_0001
Figure imgf000242_0001
Figure imgf000243_0001
Figure imgf000244_0001
Figure imgf000245_0001
Figure imgf000246_0001
Figure imgf000247_0001
Figure imgf000248_0001
Figure imgf000249_0001
Figure imgf000250_0001
Figure imgf000251_0001
Figure imgf000252_0001
Figure imgf000253_0001
Figure imgf000254_0001
Figure imgf000255_0001
Figure imgf000256_0001
Figure imgf000257_0001
Figure imgf000258_0001
Figure imgf000259_0001
Figure imgf000260_0001
Figure imgf000261_0001
Figure imgf000262_0001
Figure imgf000263_0001
Figure imgf000264_0001
Figure imgf000265_0001
Figure imgf000266_0001
Figure imgf000267_0001
Figure imgf000268_0001
Figure imgf000269_0001
Figure imgf000270_0001
Figure imgf000271_0001
Figure imgf000272_0001
Figure imgf000273_0001
EXAMPLE A1: Parenteral Composition of a Compounds of Formula Formula (Ia), (IIa), (IIa- 1), (Ib), (IIb), or (IIb-1)
[00577] To prepare a parenteral pharmaceutical composition suitable for administration by injection, 100mg of a compound of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1), or or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, is dissolved in DMSO and then mixed with 10 ml of 0.9% sterile saline solution. The mixture is incorporated into a dosage unit suitable for administration by injection. EXAMPLE A2: Oral Composition of a Compounds of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1)
[00578] To prepare a pharmaceutical composition for oral delivery, 400 mg of compound of Formula Formula (Ia), (IIa), (IIa-1), (Ib), (IIb), or (IIb-1) and the following ingredients are mixed intimately and pressed into single scored tablets.
Tablet Formulation
Ingredient Quantity per tablet (mg)
compound 400 cornstarch 50
croscarmellose sodium 25
lactose 120
magnesium stearate 5
[00579] The following ingredients are mixed intimately and loaded into a hard-shell gelatin capsule.
Capsule Formulation
Ingredient Quantity per capsule (mg)
compound 200 lactose spray dried 148
magnesium stearate 2 Biological Examples
EXAMPLE I: Experimental Method for E. coli Penicillin-Binding Protein-3 Binding Assay with Bocillin-FL via fluorescence polarization.
[00580] To determine the ability of boronic acid-based test PBP inhibitors to bind Penicillin Binding Proteins (PBPs), Bocillin-FL (fluorescently-labeled penicillin V; ThermoFisher Scientific) was used in a fluorescence polarization (FP) competition binding assay to assess inhibitor binding to PBP2, PBP3 or PBP4 from Escherichia coli. PBPs were cloned and purified as described previously (King, D.T, et al., ACS Infectious Diseases 2015, 1, 175-184). To establish assay conditions for competition binding, an enzyme titration/ saturation binding experiment was initially performed. Bocillin-FL was prepared at 0.2 µM in a buffer comprised of 50 mM Hepes (pH 8.0), 300 mM NaCl and 5% (v/v) glycerol. Saturation binding was performed by mixing 40 µl of PBP solutions ranging in
concentrations from 0– 12 µM with 40 µl of the 0.2 µM Bocillin-FL solution, in individual wells of a black 384-well microplate. FP was measured immediately upon mixing (Excitation, 490 nm;
Emission, 520 nm; g-factor, 0.96), using a Cytation3 (BioTek) microplate reader and measured continuously for up to 120 minutes. The FP response became stable after 30 minutes (80 minutes for PBP2), and showed a dose dependence on PBP concentration. For all PBPs the FP signal approached saturation with 1.5 µM PBP (final concentration). The competition binding assay was validated using beta-lactams ampicillin, aztreonam, mecillinam or meropenem. Assays (80 ^l final volume) were performed with PBPs at a final concentration of 1.5 µM, Bocillin-FL at 0.1 µM and beta-lactam concentrations that ranged from 0– 1000 µM. PBP3 was incubated with increasing concentrations of ampicillin or aztreonam in a black 384-well microplate (Corning) for 30 minutes, and PBP2 and PBP4 were likewise incubated with increasing concentrations of mecillinam and meropenem, respectively. Bocillin-FL was added and the FP immediately measured for 60 minutes (90 minutes for PBP2). The beta-lactam potency was reported as the concentration of beta-lactam required to reduce binding of Bocillin-FL by 50% (EC50). The EC50 for PBP3 with ampicillin was determined to be 1.4 µM, while that of the PBP3-specific beta-lactam aztreonam was determined to be 0.8 µM. The EC50 for mecillinam with PBP2 was found to be 2.1 µM, and the EC50 for meropenem with PBP4 was found to be < 2 ^M. Binding assays for boronic acid PBP inhibitors were performed in an identical fashion.
[00581] Representative results for binding to E. coli PBP3 are shown in Table 2, where A represents a potency of >500 mM, B represents a potency between 30 mM and 500 mM inclusive, and C represents a potency of <30 mM. NT = Not Tested. Table 2. Binding affinity to E. coli PBP3 by Exemplary Compounds in fluorescence polarization competition binding assay using Bocillin-FL.
Figure imgf000275_0001
Figure imgf000276_0001
[00582] Representative results for binding to E. coli PBP2 are shown in Table 3, where A represents a potency of >500 mM, B represents a potency between 30 mM and 500 mM inclusive, and C represents a potency of <30 mM. NT = Not Tested.
Table 3. Binding affinity to E. coli PBP2 by Exemplary Compounds in fluorescence polarization competition binding assay using Bocillin-FL.
Figure imgf000276_0002
[00583] Representative results for binding to E. coli PBP4 are shown in Table 4, where A represents a potency of >500 mM, B represents a potency between 30 mM and 500 mM inclusive, and C represents a potency of <30 mM. NT = Not Tested. Table 4. Binding affinity to E. coli PBP4 by Exemplary Compounds in fluorescence polarization competition binding assay using Bocillin-FL.
Figure imgf000277_0002
EXAMPLE II: Experimental Method to assess binding to Penicillin-Binding Proteins:
Radioligand competition binding assay.
[00584] To determine the ability of boronic acid-based test PBP inhibitors to bind Penicillin Binding Proteins (PBPs), a radio-labelled boronic acid PBP inhibitor:
Figure imgf000277_0001
(Compound A) was used in competition binding assays to determine boronic acid PBP inhibitor binding to PBP1a or PBP1b from Escherchia coli. PBP1a and PBP1b were purified as described previously (Bertsche, U.; et al., J. Biol. Chem.2005, 280 (45), 38096-38101; Born, P.; et al., J. Biol. Chem.2006.281 (37), 26985-26993). To establish assay conditions for competition binding, an enzyme titration/ saturation binding experiment was performed. Saturation binding was performed in a buffer comprised of 20 mM Tris (pH 7.5), 500 mM NaCl and 0.1% (v/v) TritonX-100, with PBP1a/ PBP1b at a final concentration of 0.1 µM and Compound A at final concentrations ranging from 0 - 100 µM. Mixtures were incubated for 60 minutes, then applied to Zeba Spin Desalting columns or plates (ThermoFisher Scientific) and centrifuged at 1000-1500 ×g for 2 minutes. The flow through, containing PBP bound with Compound A, was recovered and 100 µL mixed with 5 mL of UltimaGold liquid scintillation cocktail (Perkin Elmer), and the radioactivity counted using a Beckman Coulter LS 6500 Multipurpose scintillation counter. PBP binding of Compound A approached saturation at 20 µM of 14C-labeled probe. The competition binding assay was validated using the beta-lactam ampicillin, with Compound A at a final concentration of 20 µM, PBP1a/ PBP1b at a final concentration of 0.1 µM. PBP1a/ PBP1b was incubated with ampicillin in a 96-well microplate for 60 minutes, then Compound A was added and the mixtures incubated for an additional 60 minutes. The mixtures were then applied to Zeba Spin desalting plates and centrifuged at 1000 × g for 2 minutes. The flow through was recovered and 100 µl mixed with 5 ml of UltimaGold liquid scintillation cocktail and the radioactivity counted. Ampicillin inhibited binding of Compound A with an EC50 (the concentration of inhibitor required to reduce binding of Compound A by 50%) of less than 0.5 µM. Binding assays with boronic acid PBP inhibitors were performed in an identical fashion. The potency of boronic acid PBP inhibitors was reported as the EC50 value.
[00585] Representative results for binding to E. coli PBP1a and PBP1b are shown in Table 5, where A represents a potency of >100 mM, B represents a potency between 10 mM and 100 mM inclusive, and C represents a potency of <10 mM. NT = Not Tested.
Table 5. Binding affinity to E. coli PBP1a and PBP1b by Exemplary Compounds in competition binding assay using 14C-labeled boronic acid probe.
Figure imgf000278_0001
EXAMPLE III: In vitro Antibacterial Assays.
[00586] To determine the ability of test compounds to potentiate the inhibition of the growth of bacterial strains, classic cell based broth microdilution minimum inhibitory concentration (MIC) assays were employed. MIC assays are performed according to CLSI methods except where otherwise noted (CLSI, 2011 and CLSI, 2009). The reference type strain E. coli ATCC 25922, the wild-type parent strain E. coli AG100, the hyper-permeable E. coli 901C and E. coli D22 and the E. coli AG100A strain lacking the acrAB efflux pump encoding genes were used to determine the ability of the PBP inhibitors to penetrate the outer membrane of gram-negative bacteria and inhibit bacterial growth. Three additional challenge isolates of Klebsiella pneumoniae (K. pneumoniae 848844 producing SHV-11 and KPC-2, K. pneumoniae UMM producing SHV-5 and KPC-2 and K.
pneumoniae SI-117 producing VIM-1) were used to further assess antibacterial activity in
Enterobacteriaceae and demonstrate activity of the PBP inhibitors irrespective of the beta-lactamase content of these organisms. The P. aeruginosa PAO1, P. aeruginosa ATCC 27853 and A. baumannii ATCC 19606, along with the hyper-permeable P. aeruginosa ATCC 35151 and an engineered efflux pump-compromised strain of P. aeruginosa (DmexAB-oprM) were used to determine the ability of PBP inhibitors to penetrate the outer membrane of P. aeruginosa and A.baumannii and assess antibacterial activity against these important gram-negative organisms.
[00587] Briefly, cryo-preserved bacterial cultures of challenge strains are streaked for isolation on appropriate agar medium, in this case Mueller Hinton II agar. Following incubation to allow growth of the colonies, plates are sealed with parafilm and stored refrigerated for up to two weeks. For preparation of assay inoculum and to ensure low variability, at least 5 colonies are picked from the agar plates with an inoculating loop and aseptically transferred to a culture tube containing 3 mL of Mueller-Hinton Broth (supplemented with divalent cations to required levels based on Manufacturers’ certification). The broth culture is grown for 3-5 hours at 37 °C with shaking at 200 rpm. Meanwhile, 2-fold serial dilutions of test compounds are conducted in a 96 well plate with a final volume of 75 mL per well at 2-fold the final desired concentration. After the dilution plates are set up the growing cultures are then diluted in a cuvette containing MH II broth and the optical density is measured at 600 nm. The Inoculum is diluted such that 75 mL of this culture in Mueller-Hinton Broth results in a starting bacterial concentration of 5 x 105 CFU/mL when added to the dilution plates. The plates are incubated for 16-20 hours at 37 °C. The MIC values are read visually as the lowest concentration well with no bacterial growth.
[00588] Additional antibacterial testing of the series was performed in wild-type reference strains of N. gonorrhoeae (ATCC 49226, FA1090, WHO F and FA19). Liquid broth-based assays were used for antibacterial testing of PBP inhibitors in Neisseria gonorrhoeae. Briefly, cryo-preserved bacterial cultures of clinical strains are streaked for isolation on GC Base agar (BD# 228950 at 36 g/L autoclaved at 121 °C for 20 minutes to sterilize) with 1% Kellogg’s supplement (40 g glucose, 0.5 g glutamine, 0.05 g ferric nitrate and 2 mg cocarboxylase per 100 mL deionized water filter sterilized through 0.2 µm syringe filters). Following incubation at 36 °C and 5 % CO2 to allow growth of colonies, strains are aseptically sub-cultured from original agar plate onto 3 agar plates per strain 24 hours before inoculum preparation.2-fold serial dilutions of test compounds are conducted in a 96 well plate with a final volume of 150 mL per well at 4/3-fold the final desired concentration. For preparation of assay inoculum, a direct suspension is prepared by aseptically swabbing all colonies from sub-cultured agar plates into culture tubes containing 2 mL of fresh GC broth with 1% Kellogg’s supplement. After the dilution plates are set up, direct suspensions are then diluted in a cuvette containing GC broth (15 g proteose peptone #3, 1 g corn starch, 4g dipotassium phosphate, 1 g monopotassium phosphate and 5 g sodium chloride per liter of deionized water are mixed on a stir plate for 20 minutes, pH adjusted to 7.2 +/- 0.2 pH units with 1 N HCl, centrifuged at 10,000 x g for 20 minutes to pellet undissolved corn starch and then autoclaved at 121 °C for 20 minutes to sterilize) and the optical density is measured at 600 nm. Inocula are diluted such that 50 mL of this culture in Mueller-Hinton Broth results in a starting bacterial concentration of 5 x 105 CFU/mL when added to the dilution plates. The plates are incubated 40-42 hours at 36 °C and 5 % CO2. The MIC is read visually as the lowest concentration well with no bacterial growth.
[00589] Representative results for MIC testing in Enterobacteriaceae are shown in Table 6, where A represents an MIC ³ 128 mg/mL, B represents an MIC of 32 to 64 mg/mL, C represents an MIC from 8 to 16 mg/mL, D represents an MIC from 2 to 4 µg/mL, E represents an MIC from 0.5 to 1 µg/mL, and F represents an MIC £ 0.25 µg/mL. NT = Not Tested. Table 6: Inhibition of bacterial growth. Minimum Inhibitory Concentrations of Exemplary Compounds for Enterobacteriaceae.
Figure imgf000280_0001
Figure imgf000281_0001
Figure imgf000282_0001
Figure imgf000283_0001
[00590] Representative results for testing in P. aeruginosa and A. baumannii strains are shown in Table 7, where A represents an MIC ³ 128 mg/mL, B represents an MIC of 32 to 64 mg/mL, C represents an MIC from 8 to 16 mg/mL, D represents an MIC from 2 to 4 µg/mL, E represents an MIC from 0.5 to 1 µg/mL, and F represents an MIC£ 0.25 µg/mL. NT = Not Tested. Table 7: Inhibition of bacterial growth. Minimum Inhibitory Concentrations of Exemplary Compounds for P. aeruginosa and A. baumannii strains.
Figure imgf000283_0002
Figure imgf000284_0001
[00591] Representative results for testing in N. gonorrhoeae strains are shown in Table 8, where A represents an MIC ³ 64 mg/mL, B represents an MIC of 16 to 32 mg/mL, C represents an MIC from 4 to 8 mg/mL, D represents an MIC from 1 to 2 µg/mL, E represents an MIC from 0.25 to 0.5 µg/mL, and F represents an MIC£ 0.125 µg/mL. NT = Not Tested. Table 8: Inhibition of bacterial growth. Minimum Inhibitory Concentrations of Exemplary Compounds for N. gonorrhoeae strains.
Figure imgf000284_0002
Figure imgf000285_0001
Figure imgf000286_0001
EXAMPLE IV: Boronate Penicillin-Binding Protein (PBP) inhibitors are not impacted by CTX- M15 b-lactamase
[00592] To determine if test compounds were affected by CTX-M15, the most abundant extended spectrum b-lactamase in clinical settings worldwide, the inhibition of the growth of an engineered strain of Escherichia coli harboring CTX-M15 was tested. This strain was constructed by cloning the gene encoding CTX-M15 into the NdeI and BamHI restriction endonuclease sites of plasmid pLBII, placing the gene(s) under the control of the Lac promoter. The constructed expression plasmid for CTX-M15 was used to transform competent E. coli DH5a cells to make the engineered strain, including an empty pLBII vector control strain. The classic cell based broth microdilution MIC assay was employed as described above with the addition of control antibiotics, known to be degraded by b- lactamases (Ceftazidime, piperacillin and piperacillin+tazobactam). Examples 1 through 128 display for the most part the same MIC values in both strains regardless of the presence of CTX-M15 b- lactamase, whereas b-lactams antibiotics, ceftazidime and piperacillin have weaker MICs in the CTX- M15 producer, and the protected piperacillin+tazobactam shows similar activity between the CTX- M15 producer and the parent strain with the empty pLBII plasmid.
[00593] Representative results are shown in Table 9, where A represents an MIC ³ 512 mg/mL, B represents an MIC of 128 to 256 mg/mL, C represents an MIC from 32 to 64 mg/mL, D represents an MIC from 8 to 16 µg/mL, E represents an MIC from 2 to 4 µg/mL, and F represents an MIC<1 µg/mL. NT = Not Tested. Table 9: Inhibition of growth of engineered Escherichia coli producing CTX-M15. Minimum Inhibitory Concentrations of exemplary compounds as compared to b-lactams antibiotics.
Figure imgf000287_0001
Figure imgf000288_0001
Figure imgf000289_0001
[00594] While preferred embodiments of the present invention have been shown and described herein, it will be obvious to those skilled in the art that such embodiments are provided by way of example only. Numerous variations, changes, and substitutions will now occur to those skilled in the art without departing from the invention. It should be understood that various alternatives to the embodiments of the invention described herein may be employed in practicing the invention. It is intended that the following claims define the scope of the invention and that methods and structures within the scope of these claims and their equivalents be covered thereby.

Claims

CLAIMS WHAT IS CLAIMED IS:
1. A compound of Formula (Ia) or (Ib), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
Figure imgf000290_0001
Formula (Ib),
wherein:
L1 is -(CR1R2)n-;
L2 is -(CR1R2)m-;
L2’ is absent, -C(=O)NH-, -NHC(=O)-, or -CH2NH-;
L3 is -C(=O)-, -S(=O)-, or -S(=O)2-;
Figure imgf000290_0002
Ring A is a 6-membered aryl or a 6-membered heteroaryl;
each R1 and R2 is independently hydrogen, halogen, optionally substituted alkyl, -OH, -OR34, - SR35, -NR32R33, -NR32C(=O)R34, -C(=O)NR32R33, -NR32S(=O)2R34, ­C(=O)OH, ­C(=O)OR34, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R1 and R2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl;
R8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R20 and R21 is independently hydrogen, halogen, or optionally substituted alkyl;
R22 and R23 are independently hydrogen or optionally substituted alkyl; or
R22 and R23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl; R24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R30, R31, R50, and R51 is independently hydrogen, halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR24, -SR25, -NR22R23, - NR22C(=O)R24, -C(=O)NR22R23, -NR22S(=O)2R24, ­C(=O)OH, or ­C(=O)OR24; or
R30 and R31, or R50 and R51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
two R30 or two R50 on adjacent carbons are taken together to form an alkenyl; or
two R30 and two R31, or two R50 and two R51 on adjacent carbons are taken together to form an alkynyl;
R32, R33, R52, R53, R82, and R83 are independently hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene-glycol)-ethyl, optionally substituted saccharide, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24; or
R32 and R33, or R52 and R53, or R82 and R83 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R34, R54, and R84 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R35 and R55 are independently hydrogen, optionally substituted alkyl, optionally substituted
cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R36 and R56 are independently hydrogen, -OH, -OR24, -CN, -NO2, -NR22R23, or optionally
substituted alkyl;
Z is hydrogen, R61, -(R60)qOR61, -(R60)qO(R60)qOR61, -R60OC(=O)R61, -R60OC(=O)OR61, - R60OC(=O)NHR61, -R60OC(=O)N(R61)2, optionally substituted alkyloxyalkyl, optionally substituted acyloxyalkyl, optionally substituted alkyloxycarbonyloxyalkyl, optionally substituted cycloalkyloxycarbonyloxyalkyl, optionally substituted aryloxycarbonyloxyalkyl, or optionally substituted alkyl-[1,3]dioxol-2-one;
each R60 is independently -CH2-, -CH(CH3)-, -C(CH3)2-, or optionally substituted 1,1’- cyclopropylene;
each R61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or two R61 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R74 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, -OH, -OR84, -NR82R83, -C(=O)OH, or -C(=O)OR84;
Ra, Rb, and Rc are independently hydrogen, halogen, cyano, optionally substituted alkyl,
optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, - S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, - (CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53,
­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, - (CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or - (CR50R51)vheteroaryl;
Rd is hydrogen, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, -(CR20R21)vC(=O)OH, -C(=O)R24,
optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
each Re is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
substituted cycloalkyl;
RX is optionally substituted alkyl or optionally substituted cycloalkyl;
X1 and X2 are independently -OH, -ORX, or F; or
X1 and X2 are taken together with the boron atom to which there are attached to form a cyclic boronate ester;
each Y is independently halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -heteroaryl-NR32R33, -heterocycloalkyl-NR32R33, -heteroaryl- N(R32)C(=NR32)NR32R33, -heterocycloalkyl-N(R32)C(=NR32)NR32R33, -OH, -OR34, - O(CR30R31)wOH, -O(CR30R31)wOR34, -O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, - O(CR30R31)wNR32C(=O)OR34, -O(CR30R31)wNR32C(=O)NR32R33, - GR Doc et No.41223-728.601
O(CR30R31)wC(=O)NR32R33, -O(CR30R31)wNR32S(=O)0,1,2R34, - O(CR30R31)wNR32S(=O)0,1,2NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -OC(=O)R34, -OC(=O)(CR30R31)vNR32R33, -OC(=O)NR32R33, -OC(=O)OR34, -OC(=O)NR32(CR30R31)wNR32R33, -O-heteroaryl, -O-heterocycloalkyl, - O(CR30R31)vheteroaryl, -O(CR30R31)vheterocycloalkyl, -O(CR30R31)wNR32-heteroaryl, - O(CR30R31)wNR32-heterocycloalkyl, -O(CR30R31)wO-heterocycloalkyl, -NR32R33, - NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -NR32(CR30R31)wOR34, -NR32C(=O)R34, - NR32C(=O)OR34, -N(R32)C(=O)(CR30R31)vNR32R33, -NR32C(=O)NR32R33, - NR32C(=O)NR32(CR30R31) 2
wNR32R33, -NR3 (CR30R31)wS(=O)0,1,2R34, - NR32(CR30R31)wS(=O)0,1,2NR32R33, -NR32(CR30R31)wNR32R33S(=O)0,1,2R34, - NR32(CR30R31)wNR32S(=O)0,1,2NR32R33, -NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, - NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, - NR32(CR30R31) 32
vCO2H, -NR (CR30R31)vCO2R34, -NR32(CR30R31)vC(=O)NR32R33, -N(R32)- heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, -NR32(CR30R31)vheteroaryl, - NR32(CR30R31)vheterocycloalkyl, -NR32(CR30R31)wNR32-heteroaryl, -NR32(CR30R31)wNR32- heterocycloalkyl, -CN, -(CR30R31)vCN, -(CR30R31)vNR32R33, -(CR30R31)vOH, -(CR30R31)vOR34, -(CR30R31)vOC(=O)R34, -(CR30R31)vOC(=O)NR32R33, -(CR30R31)vO(CR30R31)wOR34, - (CR30R31)vO(CR30R31)wOH, -(CR30R31)vO(CR30R31)wNR32R33, -(CR30R31)vNR32(CR30R31)wOH, -(CR30R31)vNR32(CR30R31)wOR34, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, - (CR30R31)vC(=O)OR34, -(CR30R31)vC(=O)NR32(CR30R31)wNR32R33, - (CR30R31)vC(=O)NR32(CR30R31)wOR34, -(CR30R31)vN(R32)C(=O)R34, - (CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, -(CR30R31)vN(R32)C(=O) (CR30R31)vNR32R33, -(CR30R31)vN(R32)S(=O) 1
0,1,2R34, -(CR30R3 )vN(R32)S(=O)0,1,2NR32R33 - (CR30R31)vS(=O)0,1,2NR32R33, -(CR30R31)vNR32(CR30R31)wNR32R33, - (CR30R31) 1
vN(R32)CH(=NR36), -(CR30R31)vN(R32)C(=NR36)R34, -(CR30R3 )vC(=NR36)NR32R33, -(CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -(CR30R31)vheterocycloalkyl-NR32R33, -(CR30R31)vheteroaryl- N(R32)C(=NR36)NR32R33, -(CR30R31)vheterocycloalkyl-N(R32)C(=NR36)NR32R33, - (CR30R31)vheteroaryl, -(CR30R31)vheterocycloalkyl, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, -C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, -S(=O)1,2R34, -SR35, - S(=O)0,1,2(CR30R31)wNR32R33, -S(=O)0,1,2(CR30R31) 0
wOH, -S(=O)0,1,2(CR3 R31)wOR34, - S(=O)0,1,2NR32R33, -S(=O)0,1,2NR32(CR30R31)wNR32R33, - GR Doc et No.41223-728.601
S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)R34, -S(=O)0,1,2(CR30R31)vC(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, -Si(R34) 33
3, -NR32R R34+Q-, - (CR30R31)vNR32R33R34+Q-, -NR32(CR30R31)wNR32R33R34+Q-, - NR32R34+(CR30R31)wNR32R33R34+Q- 2, -(CR30R31)v(T)+Q-, or -O(CR30R31)wNR32R33R34+Q-; or two Ys are taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl;
Q is a pharmaceutically acceptable counterion;
n is 0-3;
m is 0-3;
p is 1-3;
each q is independently 2-6;
each v is independently 1-5; and
each w is independently 2-5.
2. The compound of claim 1, wherein L2’ is absent.
3. The compound of claim 1 or 2, wherein L3 is -C(=O)-.
4. The compound of any one of claims 1-3, wherein R8 is hydrogen or optionally substituted alkyl.
5. The compound of any one of claims 1-4, wherein R8 is hydrogen.
6. The compound of any one of claims 1-5, wherein R74 is optionally substituted alkyl, optionally substituted heterocycloalkyl, optionally substituted heteroaryl, optionally substituted
heteroaralkyl, -NR82R83, or -C(=O)OR84.
7. The compound of any one of claims 1-6, wherein R74 is optionally substituted heteroaryl.
8. The compound of any one of claims 1-6, wherein R74 is optionally substituted heterocycloalkyl.
9. The compound of any one of claims 1-6, wherein R74 is -NR82R83.
10. The compound of claim 9, wherein R82 and R83 are independently hydrogen, optionally
substituted alkyl, or optionally substituted heteroaryl.
11. The compound of claim 9, wherein R82 and R83 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl.
12. The compound of claim 11, wherein the heterocycloalkyl is piperazine, morpholine, or
imidazolidine.
13. The compound of claim 11 or 12, wherein R74 is selected from:
Figure imgf000295_0003
Figure imgf000295_0001
and wherein
R90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, - S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24;
each R91 is independently hydrogen, halogen, -OH, -CN, NH2, NO2, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; and t is 1-4.
14. The compound of claim 13, wherein R74 is:
Figure imgf000295_0004
15. The compound of any one of claims 1-6, wherein R74 is:
Figure imgf000296_0001
16. The compound of any one of claims 1-6, wherein R74 is:
Figure imgf000296_0002
17. A compound of Formula (IIa) or (IIb), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
wherein:
Figure imgf000296_0003
G is -NR8-, -C(R10)2-, or -C(R10)2NR8-;
L1 is -(CR1R2)n-;
L2 is -(CR1R2)m-;
Figure imgf000297_0001
Ring A is a 6-membered aryl or a 6-membered heteroaryl;
R1, R2, and R9 are independently hydrogen, halogen, optionally substituted alkyl, -OH, -OR34, - SR35, -NR32R33, -NR32C(=O)R34, -C(=O)NR32R33, -NR32S(=O)2R34, ­C(=O)OH, ­C(=O)OR34, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R1 and R2 are taken together with the carbon to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
R8 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
R8 and R9 are taken together with the atoms to which they are attached to form an optionally substituted heterocycloalkyl;
each R10 is independently hydrogen, halogen, or optionally substituted alkyl;
each R20 and R21 is independently hydrogen, halogen, or optionally substituted alkyl;
R22 and R23 are independently hydrogen or optionally substituted alkyl; or
R22 and R23 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R24 is optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R25 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally
substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; each R30, R31, R50, and R51 is independently hydrogen, halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR24, -SR25, -NR22R23, - NR22C(=O)R24, -C(=O)NR22R23, -NR22S(=O)2R24, ­C(=O)OH, or ­C(=O)OR24; or
R30 and R31, or R50 and R51 are taken together with the carbon atom to which they are attached to form an optionally substituted cycloalkyl; or
two R30 or two R50 on adjacent carbons are taken together to form an alkenyl; or
two R30 and two R31, or two R50 and two R51 on adjacent carbons are taken together to form an alkynyl;
R32, R33, R52, and R53 are independently hydrogen, optionally substituted alkyl, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene-glycol)-ethyl, optionally substituted saccharide, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24; or
R32 and R33, or R52 and R53 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
R34 and R54 are independently optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R35 and R55 are independently hydrogen, optionally substituted alkyl, optionally substituted
cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
R36 and R56 are independently hydrogen, -OH, -OR24, -CN, -NO2, -NR22R23, or optionally
substituted alkyl;
each R60 is independently -CH2-, -CH(CH3)-, -C(CH3)2-, or optionally substituted 1,1’- cyclopropylene;
each R61 is independently optionally substituted alkyl, optionally substituted cycloalkyl,
optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl; or
two R61 are taken together with the nitrogen to which they are attached to form an optionally substituted heterocycloalkyl;
each W1 and W2 is independently -C(=O)- or -C(R91)2-;
R90 is hydrogen, -OH, optionally substituted alkyl, optionally substituted alkoxy, optionally
substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, optionally substituted cycloalkylalkyl, optionally substituted heterocycloalkylalkyl, optionally substituted aralkyl, optionally substituted heteroaralkyl, - S(=O)2R24, -S(=O)2NR22R23, or -C(=O)R24;
each R91 is independently hydrogen, halogen, -OH, -CN, NH2, NO2, optionally substituted alkyl, optionally substituted alkoxy, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, or optionally substituted heteroaryl;
or one R90 and R91 are taken together with the atoms to which they are attached to form an
optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
Ra, Rb, and Rc are independently hydrogen, halogen, cyano, optionally substituted alkyl,
optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, - S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - GR Doc et No.41223-728.601
S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, - (CR50R51)vC(=O)OH, -(CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53,
­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, - (CR50R51)vC(=NR56)NR52R53, -(CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or - (CR50R51)vheteroaryl;
Rd is hydrogen, -CN, -OH, -S(=O)2R24, -S(=O)2NR22R23, -(CR20R21)vC(=O)OH, -C(=O)R24,
optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, (poly-ethylene- glycol)-ethyl, or an optionally substituted saccharide;
each Re is independently hydrogen, -CN, -OH, optionally substituted alkyl, or optionally
substituted cycloalkyl;
RX is optionally substituted alkyl or optionally substituted cycloalkyl;
X1 and X2 are independently -OH, -ORX, or F; or
X1 and X2 are taken together with the boron atom to which there are attached to form a cyclic boronate ester;
each Y is independently halogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -heteroaryl-NR32R33, -heterocycloalkyl-NR32R33, -heteroaryl- N(R32)C(=NR32)NR32R33, -heterocycloalkyl-N(R32)C(=NR32)NR32R33, -OH, -OR34, - O(CR30R31)wOH, -O(CR30R31)wOR34, -O(CR30R31)wNR32R33,-O(CR30R31)wNR32C(=O)R34, - O(CR30R31)wNR32C(=O)OR34, -O(CR30R31)wNR32C(=O)NR32R33, - O(CR30R31)wC(=O)NR32R33, -O(CR30R31)wNR32S(=O)0,1,2R34, - O(CR30R31)wNR32S(=O)0,1,2NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -O(CR30R31)vC(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)R34, -O(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - O(CR30R31)wN(R32)C(=NR36)NR32R33, -O(CR30R31)wS(=O)0,1,2R34, - O(CR30R31)wS(=O)0,1,2NR32R33, -OC(=O)(CR30R31)vNR32R33, -OC(=O)NR32R33, - OC(=O)OR34, -OC(=O)NR32(CR30R31)wNR32R33, -O-heteroaryl, -O-heterocycloalkyl, - O(CR30R31)vheteroaryl, -O(CR30R31)vheterocycloalkyl, -O(CR30R31)wNR32-heteroaryl, - O(CR30R31)wNR32-heterocycloalkyl, -O(CR30R31)wO-heterocycloalkyl, -NR32R33, - NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -NR32(CR30R31) 32
wOR34, -NR C(=O)R34, - NR32C(=O)OR34, -N(R32)C(=O)(CR30R31) 2
vNR32R33, -NR3 C(=O)NR32R33, - NR32C(=O)NR32(CR30R31)wNR32R33, -NR32(CR30R31)wS(=O)0,1,2R34, - NR32(CR30R31)wS(=O)0,1,2NR32R33, -NR32(CR30R31)wNR32R33S(=O)0,1,2R34, - NR32(CR30R31)wNR32S(=O)0,1,2NR32R33, -NR32C(=NR36)NR32R33, -N(R32)C(=NR36)R34, - NR32(CR30R31)wN(R32)C(=NR36)R34, -NR32(CR30R31)vC(=NR36)NR32R33, - GR Doc et No.41223-728.601
NR32(CR30R31)wN(R32)C(=NR36)NR32R33, -NR32(CR30R31)wNR32C(=O)NR32R33,- NR32(CR30R31)wNR32C(=O)OR34, -NR32S(=O)0,1,2NR32R33, -NR32S(=O)0,1,2R34, - NR32(CR30R31)vCO2H, -NR32(CR30R31)vCO2R34, -NR32(CR30R31)vC(=O)NR32R33, -N(R32)- heteroaryl-NR32R33, -N(R32)-heterocycloalkyl-NR32R33, -NR32(CR30R31)vheteroaryl, - NR32(CR30R31)vheterocycloalkyl, -NR32(CR30R31)wNR32-heteroaryl, -NR32(CR30R31)wNR32- heterocycloalkyl, -CN, -(CR30R31)vCN, -(CR30R31)vNR32R33, -(CR30R31)vOH, -(CR30R31)vOR34, -(CR30R31)vOC(=O)R34, -(CR30R31)vOC(=O)NR32R33, -(CR30R31)vO(CR30R31)wOR34, - (CR30R31)vO(CR30R31)wOH, -(CR30R31)vO(CR30R31)wNR32R33, -(CR30R31)vNR32(CR30R31)wOH, -(CR30R31)vNR32(CR30R31)wOR34, -(CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, - (CR30R31)vC(=O)OR34, -(CR30R31)vC(=O)NR32(CR30R31)wNR32R33, - (CR30R31)vC(=O)NR32(CR30R31)wOR34, -(CR30R31)vN(R32)C(=O)R34, - (CR30R31)vN(R32)C(=O)OR34, -(CR30R31)vN(R32)C(=O)NR32R33, - (CR30R31)vN(R32)C(=O)(CR30R31)vNR32R33, -(CR30R31)vN(R32)S(=O)0,1,2R34, - (CR30R31)vN(R32)S(=O)0,1,2NR32R33 -(CR30R31)vS(=O)0,1,2NR32R33, - (CR30R31)vNR32(CR30R31)wNR32R33, -(CR30R31)vN(R32)CH(=NR36), - (CR30R31)vN(R32)C(=NR36)R34, -(CR30R31)vC(=NR36)NR32R33, - (CR30R31)vN(R32)C(=NR36)NR32R33, -(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, - (CR30R31)vheteroaryl-NR32R33, -(CR30R31)vheterocycloalkyl-NR32R33, -(CR30R31)vheteroaryl- N(R32)C(=NR36)NR32R33, -(CR30R31)vheterocycloalkyl-N(R32)C(=NR36)NR32R33, - (CR30R31)vheteroaryl, -(CR30R31)vheterocycloalkyl, -C(=O)OH, -C(=O)OR34, -C(=O)NR32R33, -C(=O)NR32(CR30R31)wNR32R33, -C(=O)NR32(CR30R31)wOH, -C(=O)NR32(CR30R31)wOR34, - C(=NR36)NR32R33, -C(=NR36)NR32C(=O)R34, -S(=O)1,2R34, -SR35, - S(=O)0,1,2(CR30R31)wNR32R33, -S(=O)0,1,2(CR30R31)wOH, -S(=O)0,1,2(CR30R31)wOR34, - S(=O)0,1,2NR32R33, -S(=O)0,1,2NR32(CR30R31)wNR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)R34, -S(=O)0,1,2(CR30R31)vC(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)wN(R32)C(=NR36)NR32R33, - S(=O)0,1,2(CR30R31)vC(=NR36)NR32C(=NR36)NR32R33, -Si(R34)3, -NR32R33R34+Q-, - (CR30R31)vNR32R33R34+Q-, -NR32(CR30R31)wNR32R33R34+Q-, - NR32R34+(CR30R31)wNR32R33R34+Q- 2, -(CR30R31)v(T)+Q-, or -O(CR30R31)wNR32R33R34+Q-; or two Ys are taken together with the atoms to which they are attached to form an optionally substituted cycloalkyl or an optionally substituted heterocycloalkyl;
Z is hydrogen, R61, -(R60)qOR61, -(R60)qO(R60)qOR61, -R60OC(=O)R61, -R60OC(=O)OR61, - R60OC(=O)NHR61, -R60OC(=O)N(R61)2, optionally substituted alkyloxyalkyl, optionally substituted acyloxyalkyl, optionally substituted alkyloxycarbonyloxyalkyl, optionally substituted cycloalkyloxycarbonyloxyalkyl, optionally substituted aryloxycarbonyloxyalkyl, or optionally substituted alkyl-[1,3]dioxol-2-one;
T is pyridin-1-yl, pyrimidin-1-yl, or thiazol-3-yl;
Q is a pharmaceutically acceptable counterion; n is 0-3;
m is 0-3;
p is 1-3;
each q is independently 2-6;
u1 is 1-3;
u2 is 1-3;
each v is independently 1-5; and
each w is independently 2-5.
18. The compound of claim 17, wherein G is -NR8- or -CH2NR8-.
19. The compound of claim 17 or 18, wherein G is -NR8-.
20. The compound of claim 17 or 18, wherein G is -CH2NR8-.
21. The compound of claim 17, wherein G is -CH2-.
22. The compound of any one of claims 17-21, wherein R9 is hydrogen or optionally substituted alkyl.
23. The compound of any one of claims 17-22, wherein R9 is optionally substituted alkyl.
24. The compound of any one of claims 17-23, wherein R9 is methyl.
25. The compound of any one of claims 17-22, wherein R9 is hydrogen.
26. The compound of claim 17, wherein the compound of Formula (IIa) or (IIb), is of Formula (IIa-1) or (IIb-1), or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof:
Figure imgf000301_0001
27. The compound of claim 26, wherein u1 is 2; each W1 is -C(R91)2-; u2 is 2; and each W2 is -C(=O)- .
28. The compound of claim 26, wherein u1 is 2; each W1 is -C(R91)2-; u2 is 1; and W2 is -C(=O)-.
29. The compound of claim 26, wherein u1 is 2; each W1 is -C(R91)2-; u2 is 2; and one W2 is -C(R91)2- and one W2 is -C(=O)-.
30. The compound of claim 26, wherein u1 is 2; one W1 is -C(R91)2- and one W1 is -C(=O)-; u2 is 2; and one W2 is -C(R91)2- and one W2 is -C(=O)-.
31. The compound of any one of claims 17-30, wherein R90 is hydrogen, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted aralkyl, -S(=O)2R24, or -C(=O)R24.
32. The compound of any one of claims 17-30, wherein R90 is optionally substituted alkyl.
33. The compound of any one of claims 17-30, wherein R90 is -H, -OH,
Figure imgf000302_0001
,
Figure imgf000302_0002
34. The compound of any one of claims 17-33, wherein each R91 is independently hydrogen, halogen, or optionally substituted alkyl.
35. The compound of any one of claims 17-34, wherein each R91 is independently hydrogen or
optionally substituted alkyl.
36. The compound of any one of claims 17-34, wherein each R91 is hydrogen.
37. The compound of any one of claims 1-36, wherein Ring A is benzene.
38. The compound of any one of claims 1-36, wherein Ring A is pyridine, pyrimidine, pyrazine, or pyridazine.
39. The compound of any one of claims 1-36 or 38, wherein Ring A is pyridine.
40. The compound of any one of claims 1-39, wherein each Y is independently halogen, optionally substituted alkyl, -OH, -OR34, -O(CR30R31)wOH, -O(CR30R31)wOR34, -O(CR30R31)wNR32R33, - NR32R33, -NR32(CR30R31)wNR32R33, -NR32(CR30R31)wOH, -(CR30R31)vNR32R33, - (CR30R31)vC(=O)NR32R33, -(CR30R31)vC(=O)OH, -(CR30R31)vC(=O)OR34, -C(=NR36)NR32R33, - S(=O) 2
1,2R34, -S(=O)0,1,2NR3 R33, -C(=O)NR32R33, -OC(=O)R34, or -NR32S(=O)0,1,2R34.
41. The compound of any one of claims 1-40, wherein each Y is independently halogen, -OH, or - OR34.
42. The compound of any one of claims 1-41, wherein each Y is independently -OH or -OR34.
43. The compound of any one of claims 1-42, wherein each Y is -OH.
44. The compound of any one of claims 1-43, wherein p is 2 or 3.
45. The compound of any one of claims 1-44, wherein p is 2.
46. The compound of any one of claims 1-44, wherein p is 3.
47. The compound of any one of claims 1-46, wherein Ra, Rb, and Rc are hydrogen.
48. The compound of any one of claims 1-46, wherein Ra, Rb, and Rc are independently hydrogen, optionally substituted alkyl, fluoro, chloro, -OH, -OR54, -C(=O)H, -C(=O)OH, - (CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vC(=O)OH, - (CR50R51)vC(=O)OR54, or -(CR50R51)vheterocycloalkyl.
49. The compound of any one of claims 1-46, wherein Ra, Rb, and Rc are independently hydrogen, fluoro, chloro, optionally substituted alkyl, -(CR50R51)vC(=O)OH, or -(CR50R51)vheterocycloalkyl.
50. The compound of any one of claims 1-46, wherein at least one of Ra, Rb, and Rc is halogen, cyano, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted
heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, - O(CR50R51)wNR52R53, -O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, - O(CR50R51)vC(=O)OR54, -O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, - NR52S(=O)1,2R54, -S(=O)1,2R54, -SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, -(CR50R51)vC(=O)OH, - (CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53, ­(CR50R51) 50
vOC(=O)R54, -(CR R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, -(CR50R51)vC(=NR56)NR52R53, - (CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or -(CR50R51)vheteroaryl.
51. The compound of any one of claims 1-46, wherein Rc is halogen, cyano, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51) 52
wNR52R53, - NR (CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, -S(=O)1,2R54, - SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51) 50
vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51)vOH, -(CR50R51)vOR54, -(CR R51)vC(=O)OH, - (CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53, ­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, -(CR50R51)vC(=NR56)NR52R53, - (CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or -(CR50R51)vheteroaryl.
52. The compound of any one of claims 1-46, wherein Rc is halogen, -OH, -OR54, -S(CR50R51)wOH, - S(CR50R51)vC(=O)OH, or -S(CR50R51)vC(=O)NR52R53.
53. The compound of any one of claims 1-46, wherein Rb is halogen, cyano, optionally substituted alkyl, optionally substituted cycloalkyl, optionally substituted heterocycloalkyl, optionally substituted aryl, optionally substituted heteroaryl, -OH, -OR54, -O(CR50R51)wNR52R53, - O(CR50R51)wOH, -O(CR50R51)wOR54, -O(CR50R51)vC(=O)OH, -O(CR50R51)vC(=O)OR54, - O(CR50R51)vC(=O)NR52R53, -NR52R53, -NR52(CR50R51)wNR52R53, - NR52(CR50R51)vC(=O)OH, - NR52(CR50R51)vC(=O)OR54, - NR52(CR50R51)vC(=O)NR52R53, -NR52S(=O)1,2R54, -S(=O)1,2R54, - SR55, ­S(CR50R51)vNR52C(=NR56)NR52R53,
­S(CR50R51)vNR52CR50(=NR56),­S(CR50R51)vC(=NR56)NR52R53, -S(CR50R51)wOH, - S(CR50R51)wOR54, -S(CR50R51)wNR52R53, -S(CR50R51)vC(=O)OH, -S(CR50R51)vC(=O)OR54, - S(CR50R51)vC(=O)NR52R53, -C(=O)H, -C(=O)R54, -C(=O)OH, -C(=O)OR54, -C(=O)NR52R53, - (CR50R51)vN(R52)(CR50R51) vC(=O)OH, ­(CR50R51) 50
vOH, -(CR50R51)vOR54, -(CR R51)vC(=O)OH, - (CR50R51)vC(=O)OR54, -(CR50R51)vC(=O)NR52R53, ­(CR50R51)vOC(=O)R54, -(CR50R51)vSR55, ­(CR50R51)vNR52C(=NR56), -(CR50R51)vNR52R53, -(CR50R51)vC(=NR56)NR52R53, - (CR50R51)vC(=O)NR52R53, -(CR50R51)vheterocycloalkyl, or -(CR50R51)vheteroaryl.
54. The compound of any one of claims 1-46, wherein Rb is halogen, -OH, -OR54, -S(CR50R51)wOH, - S(CR50R51)vC(=O)OH, or -S(CR50R51)vC(=O)NR52R53.
55. The compound of any one of claims 1-54, wherein X1 is -OH and X2 is ­OH when present.
56. The compound of any one of claims 1-55, wherein Rd is alkyl or hydrogen.
57. The compound of any one of claims 1-56, wherein each Re is hydrogen.
58. The compound of any one of claims 1-56, wherein one Re is hydrogen and the other Re is alkyl.
59. The compound of any one of claims 1-58, wherein n is 0-2 and m is 0-2.
60. The compound of any one of claims 1-59, wherein n is 0 or 1 and m is 0 or 1.
61. The compound of any one of claims 1-60, wherein n is 0 and m is 0.
62. The compound of any one of claims 1-61, wherein each R1 and R2 is independently hydrogen, - OH, fluoro, chloro, bromo, or optionally substituted alkyl.
63. The compound of any one of claims 1-62, wherein each R1 and R2 is independently hydrogen, fluoro, chloro, bromo, or optionally substituted alkyl.
64. The compound of any one of claims 1-63, wherein each R1 and R2 is independently hydrogen or alkyl optionally substituted with halogen, -OH, or -NH2.
65. The compound of any one of claims 1-64, wherein each R1 and R2 is hydrogen.
66. The compound of any one of claims 1-65, wherein Z is hydrogen.
67. The compound of any one of claims 1-65, wherein Z is R61; and R61 is optionally substituted alkyl.
68. The compound of any one of claims 1-65, wherein Z is -R60OC(=O)R61 or -R60OC(=O)OR61; R60 is -CH2- or -CH(CH3)-; and R61 is optionally substituted alkyl, optionally substituted cycloalkyl, or optionally substituted heterocycloalkyl.
69. A compound selected from:
Figure imgf000305_0001
Figure imgf000306_0001
Figure imgf000307_0001
,
Figure imgf000308_0001
,
,
Figure imgf000309_0001
Figure imgf000310_0001
, , astereomer ,
Figure imgf000310_0002
,
Figure imgf000311_0001
Figure imgf000312_0001
, , ,
Figure imgf000313_0001
, , ,
Figure imgf000314_0001
,
Figure imgf000315_0001
,
Figure imgf000316_0001
Figure imgf000317_0001
Figure imgf000318_0001
Figure imgf000319_0001
Figure imgf000320_0001
Figure imgf000321_0001
,
Figure imgf000322_0001
, , ,
Figure imgf000323_0001
,
Figure imgf000324_0001
pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof.
70. A pharmaceutical composition comprising the compound of any one of claims 1-69, or a
pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, and a pharmaceutically acceptable excipient.
71. A method of treating a bacterial infection in a subject, comprising administering to the subject an effective amount of the compound of any one of claims 1-69, or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, or the pharmaceutical composition of claim 70.
72. A method of inhibiting a bacterial penicillin-binding protein in a human infected with a bacterial infection, comprising contacting said bacterial penicillin-binding protein with an effective amount of the compound of any one of claims 1-69, or a pharmaceutically acceptable salt, solvate, stereoisomer, tautomer, N-oxide, dimer, or trimer thereof, or the pharmaceutical composition of claim 70.
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