Classifications

• • A—HUMAN NECESSITIES
  • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
  • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
  • A61P35/00—Antineoplastic agents
• • C—CHEMISTRY; METALLURGY
  • C07—ORGANIC CHEMISTRY
  • C07D—HETEROCYCLIC COMPOUNDS
  • C07D487/00—Heterocyclic compounds containing nitrogen atoms as the only ring hetero atoms in the condensed system, not provided for by groups C07D451/00 - C07D477/00
  • C07D487/02—Heterocyclic compounds containing nitrogen atoms as the only ring hetero atoms in the condensed system, not provided for by groups C07D451/00 - C07D477/00 in which the condensed system contains two hetero rings
  • C07D487/04—Ortho-condensed systems
• • A—HUMAN NECESSITIES
  • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
  • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
  • A61K31/00—Medicinal preparations containing organic active ingredients
  • A61K31/33—Heterocyclic compounds
  • A61K31/395—Heterocyclic compounds having nitrogen as a ring hetero atom, e.g. guanethidine or rifamycins
  • A61K31/495—Heterocyclic compounds having nitrogen as a ring hetero atom, e.g. guanethidine or rifamycins having six-membered rings with two or more nitrogen atoms as the only ring heteroatoms, e.g. piperazine or tetrazines
  • A61K31/505—Pyrimidines; Hydrogenated pyrimidines, e.g. trimethoprim
  • A61K31/519—Pyrimidines; Hydrogenated pyrimidines, e.g. trimethoprim ortho- or peri-condensed with heterocyclic rings

Definitions

• Human kinase is a large group of enzymes that add phosphate groups (PO 4 3-) to other molecules in human body [1. FASEB J. 1995 May; 9 (8) : 576-96.2. Enzyme Res. 2011; 2011: 794089. ] . There are more than 500 kinase-encoding genes exist in the human genome and their substrates including proteins, lipids, and nucleic acids [3. Cell Signal. 2004 Sep; 16 (9) : 983-9.4. Cell. 2017 Aug 10; 170 (4) : 605-635. ] . Kinase mis-regulation is identified in many diseases including cancer, autoimmunity, neurological disorders, diabetes and cardiovascular disease.
• the mutated kinases can become constitutively active and thus cause diverse cellular anomalies, leading to cancer initiation or growth.
• Using small molecular inhibitors to inhibit kinase activity is proved to be a successful method to treat cancer and other disease [5. Expert Rev Anticancer Ther. 2018 Dec; 18 (12) : 1249-1270. ] .
• Up to now, there are more than 70 kinase inhibitors have been approved by FDA, EMA or CDE as drugs [6. Nat Rev Drug Discov. 2018 May; 17 (5) : 353-377. ] .
• Protein kinase family take a majority fraction of the kinase superfamily.
• protein kinases can phosphorylate the amino acids including serine, threonine, tyrosine and histidine.
• Protein kinases play a major role in cellular activation processes, through reversible phosphorylation and dephosphorylation of proteins, by the antagonistic action of kinases and phosphatases, is an important component of cell signaling because the phosphorylated and unphosphorylated states of the target protein can have different levels of activity.
• Different protein kinases including EGFR, BTK, ALK, JAK, PI3K and CDK are proved to be good targets for cancer drug development.
• cyclins are among the most important core cell cycle regulators. There are four basic cyclin types found in humans including G1 cyclins, G1/S cyclins, S cyclins and M cyclins. To drive the cell cycle forward, a cyclin must activate or inactivate many target proteins inside of the cell. And these cyclins drive the events of the cell cycle majorly by partnering with a family of enzymes called the cyclin-dependent kinases (Cdks) .
• Cdks cyclin-dependent kinases
• Cdk kinase itself is inactive, but binding with a cyclin can activates it, making the CDK/cyclin complex a functional holoenzyme and allowing it to modify target proteins [11. Orphanet J Rare Dis. 2020 Aug 6; 15 (1) : 203.12. J Mol Biol. 1999 Apr 16; 287 (5) : 821-8. ] .
• CDK1, CDK2, CDK4 and CDK6 are considered as the direct modulate of cell cycle majorly by phosphorylating and inactivate RB protein and release E2F transcription factors, and E2F downstream pathway is critical in regulating the initiation of DNA replication.
• CDK4/6 is essential for G1 early initiation and G1/S transition. [13. Cell Death Differ. 1998 Feb; 5 (2) : 132-40.14. Oncogene. 2016 Sep 15; 35 (37) : 4829-35. ] CDK4/6 related pathway is commonly deregulated in many different cancer types such as breast cancer, lung cancer and pancreatic cancer.
• CDK4/6 inhibitors including palbociclib, ribociclib, abemaciclib and trilaciclib which have been approved by FDA or CDE to be used as either single agent or combo with endocrine therapy to treat HR+, Her2-breast cancer.
• This approach shows good efficacy in clinic while CDK4/6 inhibitors more or less lead to hemopoietic toxicity like neutropenia and leukopenia which highly limit the clinical application of CDK4/6 inhibitors.
• emerging data indicating inhibition of CDK6/Cyclin D3 may cause the clinical observed hematologic toxicity [15. Cell. 2004 Aug 20; 118 (4) : 493-504.16. Haematologica.
• CDK4/Cyclin D1 is the oncogenic driver in different cancers [17. Nat Commun. 2019 Dec 20; 10 (1) : 5817.18.18. Cancer Cell. 2006 Jan; 9 (1) : 23-32. ] .
• Develop a CDK4 selective inhibitor might lead to advantages including improved efficacy, mitigated hematologic toxicity and expanding clinical usage in many cancers including but not limited to breast cancer, lung cancer, pancreatic cancer, prostate cancer, bone cancer, liver cancer and endometrial cancer.
• CDK4 selective inhibitor Since the protein structure of CDK4 and CDK4 share very high homology. Most of previously reported compounds are CDK4/6 dual inhibitors. Here we report compounds with high CDK4 selectivity all other kinases including CDK6, which potentially lead to better efficacy, improved toxicity profile and potential to overcome resistance mechanisms, and the like.
• each of R a and R b is, independently, hydrogen or substituted or unsubstituted C 1-8 alkyl
• each of R 1 and R 2 is, independently, hydrogen, halogen, substituted or unsubstituted C 1-8 alkyl, substituted or unsubstituted cycloalkyl, substituted or unsubstituted non-aromatic heterocyclyl, substituted or unsubstituted saturated cycloalkylalkyl, substituted or unsubstituted non-aromatic heterocyclylalkyl; or
• R 1 and R 2 together with the atoms to which R 1 and R 2 connect, form a substituted or unsubstituted cycloalkyl, or substituted or unsubstituted non-aromatic heterocyclyl.
• composition comprising an effective amount of a compound provided herein, or a pharmaceutically acceptable salt, tautomer, isotopologue, stereoisomer, or prodrug thereof, and a pharmaceutically acceptable carrier, excipient or vehicle.
• CDK kinase is CDK4 kinase.
• the methods comprising administering to a subject in need thereof an effective amount of a compound provided herein.
• the CDK is CDK4 kinase.
• CDK refers to cyclin-dependent kinase protein, a member of the protein kinase family that regulates the cell cycle.
• Known CDKs include CDK1, CDK2, CDK3, CDK4, CDK5, CDK6, CDK7, CDK8, CDK9, CDK10, and CDK11.
• a “CDK inhibitor” is a substance that (i) interacts directly with a CDK, e.g., by binding to a CDK, and (ii) reduces the expression or activity of the CDK.
• the term also includes naturally occurring variants of CDK, including CDK1, CDK2, CDK3, CDK4, CDK5, CDK6, CDK7, CDK8, CDK9, CDK10, and CDK11.
• the terms “about” and “approximately, ” when used in connection with a numeric value or range of values which is provided to characterize a particular solid form e.g., a specific temperature or temperature range, such as, for example, that describes a melting, dehydration, desolvation, or glass transition temperature; a mass change, such as, for example, a mass change as a function of temperature or humidity; a solvent or water content, in terms of, for example, mass or a percentage; or a peak position, such as, for example, in analysis by, for example, IR or Raman spectroscopy or XRPD; indicate that the value or range of values may deviate to an extent deemed reasonable to one of ordinary skill in the art while still describing the solid form.
• Techniques for characterizing crystal forms and amorphous solids include, but are not limited to, thermal gravimetric analysis (TGA) , differential scanning calorimetry (DSC) , X-ray powder diffractometry (XRPD) , single-crystal X-ray diffractometry, vibrational spectroscopy, e.g., infrared (IR) and Raman spectroscopy, solid-state and solution nuclear magnetic resonance (NMR) spectroscopy, optical microscopy, hot stage optical microscopy, scanning electron microscopy (SEM) , electron crystallography and quantitative analysis, particle size analysis (PSA) , surface area analysis, solubility studies, and dissolution studies.
• TGA thermal gravimetric analysis
• DSC differential scanning calorimetry
• XRPD X-ray powder diffractometry
• XRPD single-crystal X-ray diffractometry
• vibrational spectroscopy e.g., infrared (IR) and Raman spectros
• the value of an XRPD peak position may vary by up to ⁇ 0.2° 2 ⁇ (or ⁇ 0.2 degree 2 ⁇ ) while still describing the particular XRPD peak.
• alkyl group is a saturated, partially saturated, or unsaturated straight chain or branched non-cyclic hydrocarbon having from 1 to 10 carbon atoms, typically from 1 to 8 carbons or, in some embodiments, from 1 to 6, 1 to 4, or 2 to 6 or carbon atoms.
• Representative alkyl groups include -methyl, -ethyl, -n-propyl, -n-butyl, -n-pentyl and -n-hexyl; while saturated branched alkyls include -isopropyl, -sec-butyl, -isobutyl, -tert-butyl, -isopentyl, -neopentyl, tert-pentyl, -2-methylpentyl, -3-methylpentyl, -4-methylpentyl, -2, 3-dimethylbutyl and the like.
• An alkyl group can be substituted or unsubstituted.
• alkyl groups described herein When the alkyl groups described herein are said to be “substituted, ” they may be substituted with any substituent or substituents as those found in the exemplary compounds and embodiments disclosed herein, as well as halogen (chloro, iodo, bromo, or fluoro) ; alkyl; hydroxyl; alkoxy; alkoxyalkyl; amino; alkylamino; dialkylamino; carboxy; nitro; cyano; thiol; thioether; imine; imide; amidine; guanidine; enamine; aminocarbonyl; acylamino; phosphonato; phosphine; thiocarbonyl; sulfonyl; sulfone; sulfonamide; ketone; aldehyde; ester; urea; urethane; oxime; hydroxyl amine; alkoxyamine; aralkoxyamine; N-oxid
• a “cycloalkyl” group is a saturated, partially saturated, or unsaturated cyclic alkyl group of from 3 to 10 carbon atoms having a single cyclic ring or multiple condensed or bridged rings which can be optionally substituted with from 1 to 3 alkyl groups.
• the cycloalkyl group has 3 to 8 ring members, whereas in other embodiments the number of ring carbon atoms ranges from 3 to 5, 3 to 6, or 3 to 7.
• a cycloalkyl comprising more than one ring may be fused, spiro, or bridged, or combinations thereof.
• Such cycloalkyl groups include, by way of example, single ring structures such as cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl, cycloheptyl, cyclooctyl, 1-methylcyclopropyl, 2-methylcyclopentyl, 2-methylcyclooctyl, and the like, or multiple or bridged ring structures such as 1-bicyclo [1.1.1] pentyl, bicyclo [2.1.1] hexyl, bicyclo [2.2.1] heptyl, bicyclo [2.2.2] octyl, adamantyl and the like.
• Examples of unsaturared cycloalkyl groups include cyclohexenyl, cyclopentenyl, cyclohexadienyl, butadienyl, pentadienyl, hexadienyl, among others.
• a cycloalkyl group can be substituted or unsubstituted.
• Such substituted cycloalkyl groups include, by way of example, cyclohexanol and the like.
• aryl group is an aromatic carbocyclic group of from 6 to 14 carbon atoms having a single ring (e.g., phenyl) or multiple condensed rings (e.g., naphthyl or anthryl) .
• aryl groups contain 6-14 carbons, and in others from 6 to 12 or even 6 to 10 carbon atoms in the ring portions of the groups.
• Particular aryls include phenyl, biphenyl, naphthyl and the like.
• An aryl group can be substituted or unsubstituted.
• the phrase “aryl groups” also includes groups containing fused rings, such as fused aromatic-aliphatic ring systems (e.g., indanyl, tetrahydronaphthyl, and the like) .
• heterocyclyl is an aromatic (also referred to as heteroaryl) or non-aromatic cycloalkyl in which one to four of the ring carbon atoms are independently replaced with a heteroatom from the group consisting of O, S and N.
• heterocyclyl groups include 3 to10 ring members, whereas other such groups have 3 to 5, 3 to 6, or 3 to 8 ring members.
• Heterocyclyls can also be bonded to other groups at any ring atom (i.e., at any carbon atom or heteroatom of the heterocyclic ring) .
• a heterocyclyl group can be substituted or unsubstituted.
• a heterocyclyl group may include multiple condensed rings including, but are not limited to, bicyclic, tricyclic, and quadracylic rings, as well as bridged or spirocyclic ring systems.
• Heterocyclyl groups encompass unsaturated, partially saturated and saturated ring systems, such as, for example, imidazolyl, imidazolinyl and imidazolidinyl (e.g., imidazolidin-4-one or imidazolidin-2, 4-dionyl) groups.
• heterocyclyl includes fused ring species, including those comprising fused aromatic and non-aromatic groups, such as, for example, 1-and 2-aminotetraline, benzotriazolyl (e.g., 1H-benzo [d] [1, 2, 3] triazolyl) , benzimidazolyl (e.g., 1H-benzo [d] imidazolyl) , 2, 3-dihydrobenzo [l, 4] dioxinyl, and benzo [l, 3] dioxolyl.
• the phrase also includes bridged polycyclic ring systems containing a heteroatom such as, but not limited to, quinuclidyl.
• heterocyclyl group examples include, but are not limited to, aziridinyl, azetidinyl, azepanyl, oxetanyl, pyrrolidyl, imidazolidinyl (e.g., imidazolidin-4-onyl or imidazolidin-2, 4-dionyl) , pyrazolidinyl, thiazolidinyl, tetrahydrothiophenyl, tetrahydrofuranyl, dioxolyl, furanyl, thiophenyl, pyrrolyl, pyrrolinyl, imidazolyl, imidazolinyl, pyrazolyl, pyrazolinyl, triazolyl, tetrazolyl, oxazolyl, isoxazolyl, benzisoxazolyl (e.g., benzo [d] isoxazolyl) , thiazolyl,
• non-aromatic heterocyclyl groups do not include fused ring species that comprise a fused aromatic group.
• non-aromatic heterocyclyl groups include aziridinyl, azetidinyl, azepanyl, pyrrolidyl, imidazolidinyl (e.g., imidazolidin-4-onyl or imidazolidin-2, 4-dionyl) , pyrazolidinyl, thiazolidinyl, tetrahydrothiophenyl, tetrahydrofuranyl, piperidyl, piperazinyl (e.g., piperazin-2-onyl) , morpholinyl, thiomorpholinyl, tetrahydropyranyl (e.g., tetrahydro-2H-pyranyl) , tetrahydrothiopyranyl, oxathianyl, dithianyl, 1, 4-dioxaspiro
• substituted heterocyclyl groups may be mono-substituted or substituted more than once, such as, but not limited to, pyridyl or morpholinyl groups, which are 2-, 3-, 4-, 5-, or 6-substituted, or disubstituted with various substituents such as those listed below.
• heteroaryl group is an aryl ring system having one to four heteroatoms as ring atoms in a heteroaromatic ring system, wherein the remainder of the atoms are carbon atoms.
• heteroaryl groups contain 3 to 6 ring atoms, and in others from 6 to 9 or even 6 to 10 atoms in the ring portions of the groups. Suitable heteroatoms include oxygen, sulfur and nitrogen.
• the heteroaryl ring system is monocyclic or bicyclic.
• Non-limiting examples include but are not limited to, groups such as pyrrolyl, pyrazolyl, imidazolyl, triazolyl, tetrazolyl, oxazolyl, isoxazolyl, benzisoxazolyl (e.g., benzo [d] isoxazolyl) , thiazolyl, pyrolyl, pyridazinyl, pyrimidyl, pyrazinyl, thiophenyl, benzothiophenyl, furanyl, benzofuranyl, indolyl (e.g., indolyl-2-onyl or isoindolin-1-onyl) , azaindolyl (pyrrolopyridyl or 1H-pyrrolo [2, 3-b] pyridyl) , indazolyl, benzimidazolyl (e.g., 1H-benzo [d] imidazolyl) ,
• spirocyclic ring refers to two or more rings wherein adjacent rings are attached through a single atom.
• the individual rings within spirocyclic rings may be identical or different.
• Individual rings in spirocyclic rings may be substituted or unsubstituted and may have different substituents from other individual rings within a set of spirocyclic rings.
• a “cycloalkylalkyl” group is a radical of the formula: -alkyl-cycloalkyl, wherein alkyl and cycloalkyl are as defined above. Substituted cycloalkylalkyl groups may be substituted at the alkyl, the cycloalkyl, or both the alkyl and the cycloalkyl portions of the group.
• Representative cycloalkylalkyl groups include but are not limited to methylcyclopropyl, methylcyclobutyl, methylcyclopentyl, methylcyclohexyl, ethylcyclopropyl, ethylcyclobutyl, ethylcyclopentyl, ethylcyclohexyl, propylcyclopentyl, propylcyclohexyl and the like.
• aralkyl group is a radical of the formula: -alkyl-aryl, wherein alkyl and aryl are defined above. Substituted aralkyl groups may be substituted at the alkyl, the aryl, or both the alkyl and the aryl portions of the group. Representative aralkyl groups include but are not limited to benzyl and phenethyl groups and fused (cycloalkylaryl) alkyl groups such as 4-ethyl-indanyl.
• heterocyclylalkyl is a radical of the formula: -alkyl-heterocyclyl, wherein alkyl and heterocyclyl are defined above. Substituted heterocyclylalkyl groups may be substituted at the alkyl, the heterocyclyl, or both the alkyl and the heterocyclyl portions of the group.
• Representative heterocylylalkyl groups include but are not limited to 4-ethyl-morpholinyl, 4-propylmorpholinyl, furan-2-yl methyl, furan-3-yl methyl, pyridin-3-yl methyl, tetrahydrofuran-2-yl ethyl, and indol-2-yl propyl.
• a “halogen” is fluorine, chlorine, bromine or iodine.
• a “hydroxyalkyl” group is an alkyl group as described above substituted with one or more hydroxy groups.
• alkoxy or “alkoxyl” group is -O- (alkyl) , wherein alkyl is defined above.
• alkoxyalkyl is - (alkyl) -O- (alkyl) , wherein alkyl is defined above.
• amino group is a radical of the formula: -NH 2 .
• alkylamino is a radical of the formula: -NH-alkyl or –N (alkyl) 2 , wherein each alkyl is independently as defined above.
• a “carboxy” group is a radical of the formula: -C (O) OH.
• aminocarbonyl is a radical of the formula: -C (O) N (R # ) 2 , -C (O) NH (R # ) or -C (O) NH 2 , wherein each R # is independently a substituted or unsubstituted alkyl, cycloalkyl, aryl, aralkyl, heterocyclyl or heterocyclyl group as defined herein.
• acylamino is a radical of the formula: -NHC (O) (R # ) or -N (alkyl) C (O) (R # ) , wherein each alkyl and R # are independently as defined above.
• a “sulfonylamino” group is a radical of the formula: -NHSO 2 (R # ) or -N (alkyl) SO 2 (R # ) , wherein each alkyl and R # are defined above.
• a “urea” group is a radical of the formula: -N (alkyl) C (O) N (R # ) 2 , -N (alkyl) C (O) NH (R # ) , –N (alkyl) C (O) NH 2 , -NHC (O) N (R # ) 2 , -NHC (O) NH (R # ) , or -NH (CO) NHR # , wherein each alkyl and R # are independently as defined above.
• substituents are those found in the exemplary compounds and embodiments disclosed herein, as well as halogen (chloro, iodo, bromo, or fluoro) ; alkyl; hydroxyl; alkoxy; alkoxyalkyl; amino; alkylamino; carboxy; nitro; cyano; thiol; thioether; imine; imide; amidine; guanidine; enamine; aminocarbonyl; acylamino; phosphonato; phosphine; thiocarbonyl; sulfonyl; sulfone; sulfonamide; ketone; aldehyde; ester; urea; urethane; oxime; hydroxyl amine; alkoxyamine; aralkoxyamine
• the term “pharmaceutically acceptable salt (s) ” refers to a salt prepared from a pharmaceutically acceptable non-toxic acid or base including an inorganic acid and base and an organic acid and base.
• Suitable pharmaceutically acceptable base addition salts of the compounds of formula (I) include, but are not limited to those well-known in the art, see for example, Remington’s Pharmaceutical Sciences, 18 th eds., Mack Publishing, Easton PA (1990) or Remington: The Science and Practice of Pharmacy, 19 th eds., Mack Publishing, Easton PA (1995) .
• stereoisomer or “stereomerically pure” means one stereoisomer of a compound that is substantially free of other stereoisomers of that compound.
• a stereomerically pure compound having one chiral center will be substantially free of the opposite enantiomer of the compound.
• a stereomerically pure compound having two chiral centers will be substantially free of other diastereomers of the compound.
• a typical stereomerically pure compound comprises greater than about 80%by weight of one stereoisomer of the compound and less than about 20%by weight of other stereoisomers of the compound, greater than about 90%by weight of one stereoisomer of the compound and less than about 10%by weight of the other stereoisomers of the compound, greater than about 95%by weight of one stereoisomer of the compound and less than about 5%by weight of the other stereoisomers of the compound, or greater than about 97%by weight of one stereoisomer of the compound and less than about 3%by weight of the other stereoisomers of the compound.
• the compounds can have chiral centers and can occur as racemates, individual enantiomers or diastereomers, and mixtures thereof. All such isomeric forms are included within the embodiments disclosed herein, including mixtures thereof.
• stereomerically pure forms of such compounds are encompassed by the embodiments disclosed herein.
• mixtures comprising equal or unequal amounts of the enantiomers of a particular compound may be used in methods and compositions disclosed herein.
• isomers may be asymmetrically synthesized or resolved using standard techniques such as chiral columns or chiral resolving agents.
• the compounds can include E and Z isomers, or a mixture thereof, and cis and trans isomers or a mixture thereof.
• the compounds are isolated as either the E or Z isomer. In other embodiments, the compounds are a mixture of the E and Z isomers.
• Tautomers refers to isomeric forms of a compound that are in equilibrium with each other. The concentrations of the isomeric forms will depend on the environment the compound is found in and may be different depending upon, for example, whether the compound is a solid or is in an organic or aqueous solution. For example, in aqueous solution, pyrazoles may exhibit the following isomeric forms, which are referred to as tautomers of each other:
• the compounds can contain unnatural proportions of atomic isotopes at one or more of the atoms.
• the compounds may be radiolabeled with radioactive isotopes, such as for example tritium ( 3 H) , iodine-125 ( 125 I) , sulfur-35 ( 35 S) , or carbon-14 ( 14 C) , or may be isotopically enriched, such as with deuterium ( 2 H) , carbon-13 ( 13 C) , or nitrogen-15 ( 15 N) .
• an “isotopologue” is an isotopically enriched compound.
• isotopically enriched refers to an atom having an isotopic composition other than the natural isotopic composition of that atom. “Isotopically enriched” may also refer to a compound containing at least one atom having an isotopic composition other than the natural isotopic composition of that atom.
• isotopic composition refers to the amount of each isotope present for a given atom. Radiolabeled and isotopically encriched compounds are useful as therapeutic agents, e.g., cancer and inflammation therapeutic agents, research reagents, e.g., binding assay reagents, and diagnostic agents, e.g., in vivo imaging agents.
• isotopologues of the compounds are deuterium, carbon-13, or nitrogen-15 enriched compounds.
• Treating means an alleviation, in whole or in part, of a disorder, disease or condition, or one or more of the symptoms associated with a disorder, disease, or condition, or slowing or halting of further progression or worsening of those symptoms, or alleviating or eradicating the cause (s) of the disorder, disease, or condition itself.
• “treating” means an alleviation, in whole or in part, of a disorder, disease or condition, or a slowing, or halting of further progression or worsening of those symptoms.
• “treating” means and alleviation, in whole or in part, of a disorder, disease or condition, or symptoms associated with a condition, wherein the condition is treatable or preventable by inhibition of CDK, e.g., CDK4.
• Preventing means a method of delaying and/or precluding the onset, recurrence or spread, in whole or in part, of a disorder, disease or condition; barring a subject from acquiring a disorder, disease, or condition; or reducing a subject’s risk of acquiring a disorder, disease, or condition.
• the condition is a condition, treatable or preventable by inhibition of CDK, e.g., CDK4.
• an effective amount in connection with a compound means an amount capable of treating or preventing a disorder, disease or condition, or symptoms thereof, disclosed herein.
• subject includes an animal, including, but not limited to, an animal such a cow, monkey, horse, sheep, pig, chicken, turkey, quail, cat, dog, mouse, rat, rabbit or guinea pig, in one embodiment a mammal, in another embodiment a human.
• each of R a and R b is, independently, hydrogen or substituted or unsubstituted C 1-8 alkyl
• each of R 1 and R 2 is, independently, hydrogen, halogen, substituted or unsubstituted C 1-8 alkyl, substituted or unsubstituted cycloalkyl, substituted or unsubstituted non-aromatic heterocyclyl, substituted or unsubstituted saturated cycloalkylalkyl, substituted or unsubstituted non-aromatic heterocyclylalkyl; or
• R 1 and R 2 together with the atoms to which R 1 and R 2 connect, form a substituted or unsubstituted cycloalkyl, or substituted or unsubstituted non-aromatic heterocyclyl.
• the compound is a compound of formula (Ia) :
• each of R c and R d is, independently, hydrogen or substituted or unsubstituted C 1-8 alkyl
• R c and R d together with the nitrogen to which R c and R d connect, form a substituted or unsubstituted non-aromatic heterocyclyl; and n is 1, 2 or 3.
• the compound is a compound of formula (Ib) :
• R 1 is C 1-8 alkyl substituted with amino, alkylamino or dialkylamino.
• Aspect 2 Provided herein is a compound is a compound of formula (II) :
• R 2 is hydrogen, halogen, substituted or unsubstituted C 1-8 alkyl, or substituted or unsubstituted cycloalkyl.
• R 2 is hydrogen, F, Cl, -CF 3 , or cyclopropyl.
• R 2 is Cl
• R 2 is hydrogen
• R 2 is cyclopropyl
• R 2 is F.
• R 2 is -CF 3 .
• Aspect 3 Provided herein is a compound is a compound of formula (III) :
• each of R 3 and R 4 is, independently, hydrogen, halogen, substituted or unsubstituted C 1-8 alkyl; or
• R 3 and R 4 together with the atom to which R 3 and R 4 connect, form a substituted or unsubstituted cycloalkyl, or substituted or unsubstituted non-aromatic heterocyclyl;
• n 1, 2, or 3.
• R 3 and R 4 are F; and n is 2.
• R 3 and R 4 together with the atom to which R 3 and R 4 connect, form cyclopropyl; and n is 1.
• R 3 and R 4 together with the atom which R 3 and R 4 connect, form cyclopropyl; and n is 2.
• R 3 and R 4 are H; and n is 1.
• R 3 and R 4 are H; and n is 2.
• each of R 5 and R 6 is, independently, hydrogen, halogen, substituted or unsubstituted C 1-8 alkyl; or
• R 5 and R 6 together with the atom which R 5 and R 6 connect, form a substituted or unsubstituted cycloalkyl, or substituted or unsubstituted non-aromatic heterocyclyl;
• n 1, 2, or 3.
• R 5 and R 6 are H; and n is 2.
• R 1 is methyl; and R 2 is H.
• the compound is selected from Table 1.
• Aspect 5 Provided herein is a pharmaceutical composition
• a pharmaceutical composition comprising an effective amount of a compound provided herein, or a pharmaceutically acceptable salt, tautomer, isotopologue, stereoisomer, or prodrug thereof, and a pharmaceutically acceptable carrier, excipient or vehicle.
• a method of inhibiting activity of cyclin-dependent kinases in a cell comprising contacting said cell with an effective amount of a compound provided herein, or a pharmaceutically acceptable salt, tautomer, isotopologue, stereoisomer, or prodrug thereof.
• the cyclin-dependent kinase is CDK4.
• the compound is selective for CDK4 over CDK6.
• the compound is selective for CDK4 over CDK1, CDK2, CDK3, CDK5, CDK6, CDK7, CDK8, CDK9, CDK10, or CDK11.
• the compound is at least 20-fold selective for CDK4 over CDK6. In one embodiment, the compound is at least 50-fold selective for CDK4 over CDK6. In one embodiment, the compound is at least 100-fold selective for CDK4 over CDK6.
• provided herein is a method for the treatment or prevention of CDK mediated disorder, the methods comprising administering to a subject in need thereof an effective amount of a compound provided herein.
• the CDK is CDK4.
• provided herein is a method for the treatment or prevention of a cancer responsive to CDK activity, the methods comprising administering to a subject in need thereof an effective amount of a compound provided herein.
• the CDK is CDK4.
• the Compounds can be made using conventional organic syntheses and commercially available starting materials.
• Compounds of formula (I) , formula (II) , formula (III) , and formula (IV) can be prepared as outlined in Schemes 1-4 shown below as well as in the examples set forth herein. It should be noted that one skilled in the art would know how to modify the procedures set forth in the illustrative schemes and examples to arrive at the desired products.
• Common protecting groups may be used to prevent certain functional groups from undergoing undesired reaction. Examplary protecting groups are described in “Protective Groups in Organic Synthesis” , 4 th Edition, P.G.M. Wuts; T.W. Greene, John Wiley, 2007, and references cited therein.
• X may be halogen, boronic acid, or boronic ester
• Compound 1-1 is converted into compound 1-3 under Chan-Lam or Ullman coupling reaction conditions (e.g., Cu (OAc) 2, pyridine, dioxane, oxygen) ; then compound 1-3 is converted to the compound defined as formula (I) under substitution or coupling reaction conditions (e.g., Palladium catalyst, Cs 2 CO 3 , dioxane, etc. ) .
• Chan-Lam or Ullman coupling reaction conditions e.g., Cu (OAc) 2, pyridine, dioxane, oxygen
• substitution or coupling reaction conditions e.g., Palladium catalyst, Cs 2 CO 3 , dioxane, etc.
• Compound 3-1 (X may be halogen, boronic acid, or boronic ester) is converted into compound 3-3 under Chan-Lam or Ullman coupling reaction conditions (e.g., Cu (OAc) 2, pyridine, dioxane, oxygen) ; then compound 3-3 is converted to the compound defined as formula (III) under substitution or coupling reaction conditions (e.g., Palladium catalyst, Cs 2 CO 3 , dioxane, etc. ) .
• Chan-Lam or Ullman coupling reaction conditions e.g., Cu (OAc) 2, pyridine, dioxane, oxygen
• substitution or coupling reaction conditions e.g., Palladium catalyst, Cs 2 CO 3 , dioxane, etc.
• Compound 4-1 (X may be halogen, boronic acid, or boronic ester) is converted into compound 4-3 under Chan-Lam or Ullman coupling reaction conditions (e.g., Cu (OAc) 2, pyridine, dioxane, oxygen) ; then compound 4-3 is converted to compound 4-4 under deprotection conditions (e.g.
• compound 4-4 further undergoes alkylation or reductive amination to give compound 4-5; compound 4-5 is converted to the compound defined as formula (IV) under substitution or coupling reaction conditions (e.g., Palladium catalyst, Cs 2 CO 3 , dioxane, etc. ) .
• substitution or coupling reaction conditions e.g., Palladium catalyst, Cs 2 CO 3 , dioxane, etc.
• Silica gel (100-200 meshes) for column chromatography and silica gel (GF254) for thin-layer chromatography (TLC) are commercially available from Tsingdao Haiyang Chemical Co., Ltd. or Yantai Chemical Co., Ltd. of China; all were eluted with petroleum ether (60-90°C) /ethyl acetate (v/v) , and visualized by iodine or the solution of molybdphosphoric acid in ethanol unless otherwise specified. All extraction solvents, unless otherwise specified, were dried over anhydrous Na 2 SO 4 . 1 H NMR spectra were recorded on Bruck-400 or Varian instrument operating at 300 MHz, 400 MHz, or 500 MHz.
• Example 1 7-cyclopentyl-2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 2 7-cyclopentyl-2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 2-chloro-N, N-dimethyl-7- (p-tolyl) -7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 2 2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7- (p-tolyl) -7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 1- (4-iodophenyl) -N, N-dimethylmethanamine
• Step 2 2-chloro-7- (4- ( (dimethylamino) methyl) phenyl) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 3 7- (4- ( (dimethylamino) methyl) phenyl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 1- (2-bromo-4-nitrophenyl) -N, N-dimethylmethanamine
• Step 2 1- (2-cyclopropyl-4-nitrophenyl) -N, N-dimethylmethanamine
• Step 3 3-cyclopropyl-4- ( (dimethylamino) methyl) aniline
• Step 4 (3-cyclopropyl-4- ( (dimethylamino) methyl) phenyl) boronic acid
• Step 5 2-chloro-7- (3-cyclopropyl-4- ( (dimethylamino) methyl) phenyl) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 6 7- (3-cyclopropyl-4- ( (dimethylamino) methyl) phenyl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 1- (4-bromo-2-fluorophenyl) -N, N-dimethylmethanamine
• Step 2 (4- ( (dimethylamino) methyl) -3-fluorophenyl) boronic acid
• Step 4 7- (4- ( (dimethylamino) methyl) -3-fluorophenyl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 1- (4-bromo-2-chlorophenyl) -N, N-dimethylmethanamine
• Step 2 (3-chloro-4- ( (dimethylamino) methyl) phenyl) boronic acid
• Step 4 7- (3-chloro-4- ( (dimethylamino) methyl) phenyl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Example 7 7- (4- ( (dimethylamino) methyl) -3- (trifluoromethyl) phenyl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 1- (4-bromo-2- (trifluoromethyl) phenyl) -N, N-dimethylmethanamine
• Step 2 (4- ( (dimethylamino) methyl) -3- (trifluoromethyl) phenyl) boronic acid
• Step 3 2-chloro-7- (4- ( (dimethylamino) methyl) -3- (trifluoromethyl) phenyl) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 4 7- (4- ( (dimethylamino) methyl) -3- (trifluoromethyl) phenyl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Example 8 2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7- (2-methyl-1, 2, 3, 4-tetrahydroisoquinolin-6-yl) -7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 tert-butyl 6- (2-chloro-6- (dimethylcarbamoyl) -7H-pyrrolo [2, 3-d] pyrimidin-7-yl) -3, 4-dihydroisoquinoline-2 (1H) -carboxylate
• Step 2 2-chloro-N, N-dimethyl-7- (1, 2, 3, 4-tetrahydroisoquinolin-6-yl) -7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 3 2-chloro-N, N-dimethyl-7- (2-methyl-1, 2, 3, 4-tetrahydroisoquinolin-6-yl) -7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 4 2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7- (2-methyl-1, 2, 3, 4-tetrahydroisoquinolin-6-yl) -7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Example 9 7- (5- (dimethylamino) -5, 6, 7, 8-tetrahydronaphthalen-2-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 2 (5- (dimethylamino) -5, 6, 7, 8-tetrahydronaphthalen-2-yl) boronic acid
• Step 4 7- (5- (dimethylamino) -5, 6, 7, 8-tetrahydronaphthalen-2-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Example 10 7- (4'- (dimethylamino) -3', 4'-dihydro-2'H-spiro [cyclopropane-1, 1'-naphthalen] -7'-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 7-bromo-1-methylene-1, 2, 3, 4-tetrahydronaphthalene
• Step 2 7'-bromo-3', 4'-dihydro-2'H-spiro [cyclopropane-1, 1'-naphthalene]
• Step 3 7'-bromo-2', 3'-dihydro-4'H-spiro [cyclopropane-1, 1'-naphthalen] -4'-one
• Step 4 7'-bromo-N, N-dimethyl-3', 4'-dihydro-2'H-spiro [cyclopropane-1, 1'-naphthalen] -4'-amine
• Step 5 N, N-dimethyl-7'- (4, 4, 5, 5-tetramethyl-1, 3, 2-dioxaborolan-2-yl) -3', 4'-dihydro-2'H-spiro [cyclopropane-1, 1'-naphthalen] -4'-amine
• Step 6 (4'- (dimethylamino) -3', 4'-dihydro-2'H-spiro [cyclopropane-1, 1'-naphthalen] -7'-yl) boronic acid
• Step 7 2-chloro-7- (4'- (dimethylamino) -3', 4'-dihydro-2'H-spiro [cyclopropane-1, 1'-naphthalen] -7'-yl) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 8 7- (4'- (dimethylamino) -3', 4'-dihydro-2'H-spiro [cyclopropane-1, 1'-naphthalen] -7'-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Example 11 7- (5- (dimethylamino) -8, 8-difluoro-5, 6, 7, 8-tetrahydronaphthalen-2-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 1 7-bromo-3, 4-dihydro-2H-spiro [naphthalene-1, 2'- [1, 3] dithiolane]
• Step 2 7-bromo-1, 1-difluoro-1, 2, 3, 4-tetrahydronaphthalene
• Step 3 6-bromo-4, 4-difluoro-3, 4-dihydronaphthalen-1 (2H) -one
• Step 4 (E) -N- (6-bromo-4, 4-difluoro-3, 4-dihydronaphthalen-1 (2H) -ylidene) -2-methylpropane-2-sulfinamide
• Step 5 N- (6-bromo-4, 4-difluoro-1, 2, 3, 4-tetrahydronaphthalen-1-yl) -2-methylpropane-2-sulfinamide
• Step 6 6-bromo-4, 4-difluoro-1, 2, 3, 4-tetrahydronaphthalen-1-amine
• Step 7 6-bromo-4, 4-difluoro-N, N-dimethyl-1, 2, 3, 4-tetrahydronaphthalen-1-amine
• Step 8 4, 4-difluoro-N, N-dimethyl-6- (4, 4, 5, 5-tetramethyl-1, 3, 2-dioxaborolan-2-yl) -1, 2, 3, 4-tetrahydronaphthalen-1-amine
• Step 9 (5- (dimethylamino) -8, 8-difluoro-5, 6, 7, 8-tetrahydronaphthalen-2-yl) boronic acid
• Step 10 2-chloro-7- (5- (dimethylamino) -8, 8-difluoro-5, 6, 7, 8-tetrahydronaphthalen-2-yl) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 11 7- (5- (dimethylamino) -8, 8-difluoro-5, 6, 7, 8-tetrahydronaphthalen-2-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Example 12 7- (1- (dimethylamino) -2, 3-dihydro-1H-inden-5-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 2 (1- (dimethylamino) -2, 3-dihydro-1H-inden-5-yl) boronic acid
• Step 3 2-chloro-7- (1- (dimethylamino) -2, 3-dihydro-1H-inden-5-yl) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 4 7- (1- (dimethylamino) -2, 3-dihydro-1H-inden-5-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Example 13 7- (3'- (dimethylamino) -2', 3'-dihydrospiro [cyclopropane-1, 1'-inden] -6'-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 2 6'-bromo-2', 3'-dihydrospiro [cyclopropane-1, 1'-indene]
• Step 4 (E) -N- (6'-bromospiro [cyclopropane-1, 1'-inden] -3' (2'H) -ylidene) -2-methylpropane-2-sulfinamide
• Step 5 N- (6'-bromo-2', 3'-dihydrospiro [cyclopropane-1, 1'-inden] -3'-yl) -2-methylpropane-2-sulfinamide
• Step 6 6'-bromo-2', 3'-dihydrospiro [cyclopropane-1, 1'-inden] -3'-amine
• Step 7 6'-bromo-N, N-dimethyl-2', 3'-dihydrospiro [cyclopropane-1, 1'-inden] -3'-amine
• Step 8 N, N-dimethyl-6'- (4, 4, 5, 5-tetramethyl-1, 3, 2-dioxaborolan-2-yl) -2', 3'-dihydrospiro [cyclopropane-1, 1'-inden] -3'-amine
• Step 9 (3'- (dimethylamino) -2', 3'-dihydrospiro [cyclopropane-1, 1'-inden] -6'-yl) boronic acid
• Step 10 2-chloro-7- (3'- (dimethylamino) -2', 3'-dihydrospiro [cyclopropane-1, 1'-inden] -6'-yl) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• Step 11 7- (3'- (dimethylamino) -2', 3'-dihydrospiro [cyclopropane-1, 1'-inden] -6'-yl) -2- ( ( (3S, 4R) -3-hydroxytetrahydro-2H-pyran-4-yl) amino) -N, N-dimethyl-7H-pyrrolo [2, 3-d] pyrimidine-6-carboxamide
• TR-FRET time-resolved fluorescence-resonance energy transfer
• the assay was carried out in 384-well low volume black plates in a reaction mixture containing CDK4/Cyclin D1 or CDK6/Cyclin D3, 1 mM ATP, 0.15 ⁇ M Rb (Ser780) -biotin substrate and 0-10 ⁇ M compound in buffer containing 50 mM HEPES pH7.0, 0.02%NaN3, 0.01%BSA, 0.1mM Orthovanadate, 50 mM MgCl2, 1 mM DTT and 0.005%Tween-20.
• the kinase was incubated with compound for 60 minutes at room temperature and the reaction was initiated by the addition of ATP and Rb (Ser780) -biotin substrate.
• stop/detection solution After reaction at room temperature for 120 minutes, an equal volume of stop/detection solution was added according to the manufacture’s instruction (Cisbio Bioassays) .
• the stop/detection solution contained Streptavidin-XL665 and Anti-pRb (Ser780) mAb-Eu Cryptate in Detection buffer (Cisbio Bioassays) . Plates were incubated at room temperature for 60 minutes, and the TR-FRET signals (ex337nm, em665nm/620nm) were recorded on a PHERAstar FSX plate reader (BMG Labtech) .
• the inhibition percentage of CDK4/Cyclin D1 or CDK6/Cyclin D3 kinase activity in presence of increasing concentrations of compounds was calculated based on the ratio of fluorescence at 665 nm to that at 620 nm.
• the IC 50 of each compound was derived from fitting the data to the four-parameter logistic equation by Dotmatics.
• Each of the compounds in Table 1 was tested in one or more of the CDK4 biochemical assays and was found to have activity therein.

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