US20210059992A1 - Heteroaromatic compounds as vanin inhibitors - Google Patents

Heteroaromatic compounds as vanin inhibitors Download PDF

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US20210059992A1
US20210059992A1 US17/025,381 US202017025381A US2021059992A1 US 20210059992 A1 US20210059992 A1 US 20210059992A1 US 202017025381 A US202017025381 A US 202017025381A US 2021059992 A1 US2021059992 A1 US 2021059992A1
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Cédrickx GODBOUT
Martin Thomas FLECK
Hannes Fiepko KOOLMAN
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Boehringer Ingelheim International GmbH
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    • C07D471/02—Heterocyclic compounds containing nitrogen atoms as the only ring hetero atoms in the condensed system, at least one ring being a six-membered ring with one nitrogen atom, not provided for by groups C07D451/00 - C07D463/00 in which the condensed system contains two hetero rings
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    • C07D213/02—Heterocyclic compounds containing six-membered rings, not condensed with other rings, with one nitrogen atom as the only ring hetero atom and three or more double bonds between ring members or between ring members and non-ring members having three double bonds between ring members or between ring members and non-ring members
    • C07D213/04—Heterocyclic compounds containing six-membered rings, not condensed with other rings, with one nitrogen atom as the only ring hetero atom and three or more double bonds between ring members or between ring members and non-ring members having three double bonds between ring members or between ring members and non-ring members having no bond between the ring nitrogen atom and a non-ring member or having only hydrogen or carbon atoms directly attached to the ring nitrogen atom
    • C07D213/60—Heterocyclic compounds containing six-membered rings, not condensed with other rings, with one nitrogen atom as the only ring hetero atom and three or more double bonds between ring members or between ring members and non-ring members having three double bonds between ring members or between ring members and non-ring members having no bond between the ring nitrogen atom and a non-ring member or having only hydrogen or carbon atoms directly attached to the ring nitrogen atom with hetero atoms or with carbon atoms having three bonds to hetero atoms with at the most one bond to halogen, e.g. ester or nitrile radicals, directly attached to ring carbon atoms
    • C07D213/78—Carbon atoms having three bonds to hetero atoms, with at the most one bond to halogen, e.g. ester or nitrile radicals
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    • C07D213/02—Heterocyclic compounds containing six-membered rings, not condensed with other rings, with one nitrogen atom as the only ring hetero atom and three or more double bonds between ring members or between ring members and non-ring members having three double bonds between ring members or between ring members and non-ring members
    • C07D213/04—Heterocyclic compounds containing six-membered rings, not condensed with other rings, with one nitrogen atom as the only ring hetero atom and three or more double bonds between ring members or between ring members and non-ring members having three double bonds between ring members or between ring members and non-ring members having no bond between the ring nitrogen atom and a non-ring member or having only hydrogen or carbon atoms directly attached to the ring nitrogen atom
    • C07D213/60—Heterocyclic compounds containing six-membered rings, not condensed with other rings, with one nitrogen atom as the only ring hetero atom and three or more double bonds between ring members or between ring members and non-ring members having three double bonds between ring members or between ring members and non-ring members having no bond between the ring nitrogen atom and a non-ring member or having only hydrogen or carbon atoms directly attached to the ring nitrogen atom with hetero atoms or with carbon atoms having three bonds to hetero atoms with at the most one bond to halogen, e.g. ester or nitrile radicals, directly attached to ring carbon atoms
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Definitions

  • the present invention relates to novel compounds which inhibit Vanin, pharmaceutical compositions containing the same and their use as medicaments.
  • Isoforms 1 and 2 of Vanin enzymes are single-domain extracellular pantetheinases that catalyze the cleavage of pantethine and pantetheine into pantothenic acid and cystamine and cysteamine, respectively (Martin, Immunogenetics, (2001 May-Jun) Vol. 53, No. 4, pp. 296-306).
  • Generation of cysteamine has been linked to increased oxidative in tissue stress resulting from decreased glutathione levels, a condition characteristic of many pathological conditions, including IBD (Xavier, Nature. 2011 Jun. 15; 474 (7351):307-17), cancer (Sosa, Ageing research reviews, (2013 Jan) Vol. 12, No. 1, pp. 376-90) and diabetes (Lipinski, Journal of diabetes and its complications, (2001 Jul-Aug) Vol. 15, No. 4, pp. 203-10).
  • mice Homozygous VNN1 knock-out (KO) mice lack appreciable levels of cysteamine in blood and tissues and show glutathione-mediated tissue resistance to oxidative stress (Berruyer, The Journal of experimental medicine, (2006 Dec. 25) Vol. 203, No. 13, pp. 2817-27). In addition, these mice are protected from intestinal injury in TNBS, DSS and Schistosoma -induced colitis models (Berruyer, The Journal of experimental medicine, (2006 Dec. 25) Vol. 203, No. 13, pp. 2817-27; Pouyet, Inflammatory bowel diseases, (2010 Jan) Vol. 16, No. 1, pp. 96-104; Martin, The Journal of clinical investigation, (2004 February) Vol. 113, No. 4, pp. 591-7). Given rodents lack Vanin-2, their only source of cysteamine is from Vanin-1, therefore the protective phenotype of the VNN1 KO mouse is attributed to the lack of cysteamine.
  • Elevated Vanin-1 expression and activity are also present and serve as biomarkers for pancreatic cancer associated new-onset diabetes (Kang, Cancer Letters (New York, N.Y., United States) (2016), 373(2), 241-250) and are also correlated with poor prognosis and response to treatment in colorectal cancer (Chai, American journal of translational research, (2016) Vol. 8, No. 10, pp. 4455-4463).
  • WO2014048547, WO2018011681 and WO2016193844 disclose Vanin inhibitors for the treatment of a series of diseases e.g. Crohn' s disease and ulcerative colitis.
  • the problem to be solved by the present invention is to provide novel compounds which act as inhibitors of Vanin enzymes, preferably as inhibitors of the Vanin-1 enzyme.
  • the compounds of the present invention have potent Vanin-1 inhibitors activity, preferably exhibiting an inhibition of VNN-1 IC 50 [ nM] ⁇ 100, more preferred IC 50 [ nM] ⁇ 10, particularly preferred IC 50 [ nM] ⁇ 1.
  • Drugs with long residence times in the body are preferred because they remain effective for a longer period of time and therefore can be used in lower doses.
  • the compounds of the present invention indicate favorable mean residence times (MRT).
  • the compounds of the present invention exhibit further capacities, which are favorable for their pharmacokinetic and pharmacological profile, e.g. good solubility and good metabolic stability. Furthermore the compounds of the present invention show a good chemical stability.
  • the present invention therefore relates to a compound of formula I
  • R 4 denotes hydrogen or C 1-4 -alkyl optionally substituted with 1 to 3 F-atoms
  • R 3 and R 4 together form a 4-6-membered heterocycle containing one oxygen atom; or a pharmaceutically acceptable salt thereof.
  • n denotes 1 or 2.
  • n denotes 1.
  • n denotes 2.
  • n denotes 3.
  • n denotes 1 or 2.
  • n denotes 1.
  • n denotes 2.
  • R 1 denotes H or methyl
  • R 1 denotes H.
  • R 1 denotes methyl
  • R 2 denotes methyl, ethyl, pyrimidine or phenyl substituted by R 2.1 ,
  • R 2.1 is selected from the group consisting of H, F, Cl and —CN.
  • R 2 denotes methyl or phenyl substituted by R 2.1 .
  • R 2 denotes methyl, ethyl, pyrimidine or phenyl.
  • R 2 denotes methyl or ethyl.
  • R 2 denotes methyl
  • R 2 denotes ethyl
  • R 2 denotes pyrimidine
  • R 2 denotes phenyl substituted by R 2.1 .
  • R 2.1 denotes H, F, Cl or CN.
  • R 2.1 denotes H.
  • R 2.1 denotes F.
  • R 2.1 denotes Cl.
  • R 2.1 denotes CN.
  • R 3 denotes NR 3.1 R 3.2 .
  • R 3 denotes a group of formula R 3.a .
  • R 3 denotes a group of formula R 3.b .
  • X denotes CH 2 .
  • X denotes O.
  • X denotes NR X .
  • R X denotes H or C 1-3 -alkyl.
  • R X denotes H.
  • R X denotes C 1-3 -alkyl, preferably methyl.
  • R 3.1 denotes —COCH 3 , pyrimidine, C 3-4 -cycloalkyl-CO— substituted with R 3.1.1 and R 3.1.2 ,
  • R 3.1.1 , R 3.1.2 independently from each other denote H, —CH 3 , F or —CN.
  • R 3.1 denotes —CO—C 1-4 -alkyl.
  • R 3.1 denotes —COCH 3 .
  • R 3.1 denotes pyrimidine.
  • R 3.1 denotes C 3-4 -cycloalkyl-CO—.
  • R 3.1 denotes cyclopropyl-CO— substituted with R 3.1.1 and R 3.1.2 .
  • R 3.1 denotes cyclobutyl-CO— substituted with R 3.1.1 and R 3.1.2 .
  • R 3.1.1 , R 3.1.2 independently from each other denote H, CH 3 , F or —CN.
  • R 3.1.l denotes H.
  • R 3.1.2 denotes H.
  • R 3.1.1 and R 3.1.2 denote H.
  • R 3.2 denotes CH 3 .
  • R 4 denotes hydrogen
  • R 3 and R 4 together form a 6-membered heterocycle containing one oxygen atom.
  • a further preferred embodiment of the current invention are the above compounds of formula I, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 13.3, 5.2, 13.1, 4.1, 11.10, 4.4, 11.9, 7.4, 4.3, 7.1, 8.3, 11.6, 10 and 9.3.
  • a further preferred embodiment of the current invention are the above compounds of formula I, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 5.2, 4.1, 4.4, 7.4, 4.3, 7.1, 8.3, 10 and 9.3.
  • a further preferred embodiment of the current invention are the above compounds of formula I, selected from the group consisting of examples 13.1, 13.3, 11.10, 11.9 and 11.6.
  • a further preferred embodiment of the current invention is the compound of example 6.
  • a further preferred embodiment of the current invention is the compound of example 9.1
  • a further preferred embodiment of the current invention is the compound of example 8.2.
  • a further preferred embodiment of the current invention is the compound of example 5.3.
  • a further preferred embodiment of the current invention is the compound of example 2.1.
  • a further preferred embodiment of the current invention is the compound of example 7.2.
  • a further preferred embodiment of the current invention is the compound of example 13.3.
  • a further preferred embodiment of the current invention is the compound of example 5.2.
  • a further preferred embodiment of the current invention is the compound of example 13.1.
  • a further preferred embodiment of the current invention is the compound of example 4.1.
  • a further preferred embodiment of the current invention is the compound of example 11.10.
  • a further preferred embodiment of the current invention is the compound of example 4.4.
  • a further preferred embodiment of the current invention is the compound of example 11.9.
  • a further preferred embodiment of the current invention is the compound of example 7.4.
  • a further preferred embodiment of the current invention is the compound of example 4.3.
  • a further preferred embodiment of the current invention is the compound of example 7.1.
  • a further preferred embodiment of the current invention is the compound of example 8.3.
  • a further preferred embodiment of the current invention is the compound of example 11.6.
  • a further preferred embodiment of the current invention is the compound of example 10.
  • a further preferred embodiment of the current invention is the compound of example 9.3.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the above compounds of formula I, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 13.3, 5.2, 13.1, 4.1, 11.10, 4.4, 11.9, 7.4, 4.3, 7.1, 8.3, 11.6, 10 and 9.3.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the above compounds of formula I, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 5.2, 4.1, 4.4, 7.4, 4.3, 7.1, 8.3, 10 and 9.3.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the above compounds of formula I, selected from the group consisting of examples 13.1, 13.3, 11.10, 11.9 and 11.6.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 6.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 9.1
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 8.2.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 5.3.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 2.1.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 7.2.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 13.3.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 5.2.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 13.1.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 4.1.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 11.10.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 4.4.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 11.9.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 7.4.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 4.3.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 7.1.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 8.3.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 11.6.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 10.
  • a further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 9.3.
  • a further preferred embodiment of the current invention are compounds of formula I, selected from the group consisting of the examples listed in Table A or pharmaceutically acceptable salts thereof.
  • a further preferred embodiment of the current invention are compounds of formula I, selected from the group consisting of the examples listed in Table B or pharmaceutically acceptable salts thereof.
  • Another embodiment of the present invention are compounds of formula IA or the pharmaceutically acceptable salts thereof.
  • Another embodiment of the present invention are compounds of formula IB or the pharmaceutically acceptable salts thereof.
  • Another embodiment of the present invention are compounds of formula IC or the pharmaceutically acceptable salts thereof.
  • Another embodiment of the present invention are compounds of formula ID or the pharmaceutically acceptable salts thereof.
  • R 1 , R 2 , R 3 , R 4 , R 2.1 , R 2.1.1 , R 2.1.2 , R 2.1.3 , R 2.1.4 , R 3.1 , R 3.1.1 , R 3.1.2 , R 3.1.3 , R 3.1.4 , R 3.1.5 , R 3.1.1.1 , R 3.2 , R X , m, n and X may be combined with each other,
  • a further embodiment of the current invention is a pharmaceutical composition
  • a pharmaceutical composition comprising a therapeutically effective amount of at least one compound of formula I or a pharmaceutically acceptable salt thereof and one or more pharmaceutically acceptable excipients.
  • a further embodiment of the current invention is a compound of formula I or a pharmaceutically acceptable salt thereof for use as a medicament.
  • the present invention relates to the use of a compound of general formula I for the treatment and/or prevention of a disease and/or condition associated with or modulated by Vanin-1 or Vanin-2, especially Vanin-1, including but not limited to the treatment and/or prevention of inflammatory diseases, preferably inflammatory bowel diseases.
  • a further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from Crohn's disease, ulcerative colitis, atopic dermatitis, systemic sclerosis, Non-Alcoholic Steatohepathitis (NASH), psoriasis, chronic kidney disease, chronic obstructive pulmonary disease, idiopathic pulmonary fibrosis, rheumatoid arthritis, scleroderma, asthma, allergic rhinitis, allergic eczema, juvenile rheumatoid arthritis, juvenile idiopathic arthritis, graft versus host disease, psoriatic arthritis, Hyperlipidemia, colorectal cancer or pancreatic cancer related new onset diabetes.
  • NASH Non-Alcoholic Steatohepathitis
  • a further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from Crohn's disease, ulcerative colitis, systemic sclerosis, Non-Alcoholic Steatohepathitis (NASH), chronic obstructive pulmonary disease or atopic dermatitis, preferably Crohn's disease, ulcerative colitis, systemic sclerosis, Non-Alcoholic Steatohepathitis (NASH) or atopic dermatitis, particularly preferred from Crohn's disease or ulcerative colitis.
  • NASH Non-Alcoholic Steatohepathitis
  • a further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from moderate to severe Crohn's disease.
  • a further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from ulcerative colitis.
  • a further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from atopic dermatitis.
  • a further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from NASH.
  • NASH Non-Alcoholic Steatohepathitis
  • the present invention relates to a compound of general formula 1 for use in the treatment and/or prevention of above mentioned diseases and conditions.
  • the present invention relates to the use of a compound of general formula 1 for the preparation of a medicament for the treatment and/or prevention of above mentioned diseases and conditions.
  • the present invention relates to methods for the treatment or prevention of above mentioned diseases and conditions, which method comprises the administration of an effective amount of a compound of general formula 1 to a human being.
  • the actual pharmaceutically effective amount or therapeutic dosage will usually depend on factors known by those skilled in the art such as age and weight of the patient, route of administration and severity of disease. In any case the compounds will be administered at dosages and in a manner which allows a pharmaceutically effective amount to be delivered based upon patient's unique condition.
  • a further embodiment of the current invention is a pharmaceutical composition
  • a pharmaceutically active compound selected from the group consisting of an immunomodulatory agent, anti-inflammatory agent, or a chemotherapeutic agent.
  • agents include but are not limited to cyclophosphamide, mycophenolate (MMF), hydroxychloroquine, glucocorticoids, corticosteroids, immunosuppressants, NSAIDs, non-specific and COX-2 specific cyclooxygenase enzyme inhibitors, tumour necrosis factor receptor (TNF) receptors antagonists, IL12/23 and IL23 antagonists, ⁇ 4 ⁇ 7 integrin blocking antibodies, non-selective and selective JAK kinase inhibitors and methotrexate, but also combinations of two or three active substances.
  • TNF tumour necrosis factor receptor
  • C 1-6 -alkyl means an alkyl group or radical having 1 to 6 carbon atoms.
  • groups like HO, H 2 N, (O)S, (O) 2 S, CN (cyano), HOOC, F 3 C or the like the skilled artisan can see the radical attachment point(s) to the molecule from the free valences of the group itself.
  • aryl-C 1-3 -alkyl means an aryl group which is bound to a C 1-3 -alkyl-group, the latter of which is bound to the core or to the group to which the substituent is attached.
  • the numeration of the atoms of a substituent starts with the atom which is closest to the core or to the group to which the substituent is attached.
  • 3-carboxypropyl-group represents the following substituent:
  • the asterisk may be used in sub-formulas to indicate the bond which is connected to the core molecule as defined.
  • substituted means that any one or more hydrogens on the designated atom is replaced with a selection from the indicated group, provided that the designated atom's normal valence is not exceeded, and that the substitution results in a stable compound.
  • a given chemical formula or name shall encompass tautomers and all stereo, optical and geometrical isomers (e.g. enantiomers, diastereomers, E/Z isomers etc . . .
  • substantially pure stereoisomers can be obtained according to synthetic principles known to a person skilled in the field, e.g. by separation of corresponding mixtures, by using stereochemically pure starting materials and/or by stereoselective synthesis. It is known in the art how to prepare optically active forms, such as by resolution of racemic forms or by synthesis, e.g. starting from optically active starting materials and/or by using chiral reagents. Enantiomerically pure compounds of this invention or intermediates may be prepared via asymmetric synthesis, for example by preparation and subsequent separation of appropriate diastereomeric compounds or intermediates which can be separated by known methods (e.g. by chromatographic separation or crystallization) and/or by using chiral reagents, such as chiral starting materials, chiral catalysts or chiral auxiliaries.
  • phrases “pharmaceutically acceptable” is employed herein to refer to those compounds, materials, compositions, and/or dosage forms which are, within the scope of sound medical judgment, suitable for use in contact with the tissues of human beings and animals without excessive toxicity, irritation, allergic response, or other problem or complication, and commensurate with a reasonable benefit/risk ratio.
  • pharmaceutically acceptable salt refer to derivatives of the disclosed compounds wherein the parent compound is modified by making acid or base salts thereof.
  • pharmaceutically acceptable salts include, but are not limited to, mineral or organic acid salts of basic residues such as amines; alkali or organic salts of acidic residues such as carboxylic acids; and the like.
  • such salts include salts from benzenesulfonic acid, benzoic acid, citric acid, ethanesulfonic acid, fumaric acid, gentisic acid, hydrobromic acid, hydrochloric acid, maleic acid, malic acid, malonic acid, mandelic acid, methanesulfonic acid, 4-methyl-benzenesulfonic acid, phosphoric acid, salicylic acid, succinic acid, sulfuric acid and tartaric acid.
  • salts can be formed with cations from ammonia, L-arginine, calcium, 2,2′-iminobisethanol, L-lysine, magnesium, N-methyl-D-glucamine , potassium, sodium and tris(hydroxymethyl)-aminomethane.
  • the pharmaceutically acceptable salts of the present invention can be synthesized from the parent compound which contains a basic or acidic moiety by conventional chemical methods. Generally, such salts can be prepared by reacting the free acid or base forms of these compounds with a sufficient amount of the appropriate base or acid in water or in an organic diluent like ether, ethyl acetate, ethanol, isopropanol, or acetonitrile, or a mixture thereof.
  • Salts of other acids than those mentioned above which for example are useful for purifying or isolating the compounds of the present invention e.g. trifluoro acetate salts, also comprise a part of the invention.
  • halogen generally denotes fluorine, chlorine, bromine and iodine.
  • C 1-n -alkyl wherein n is an integer selected from 2, 3, 4, 5 or 6, preferably 4 or 6, either alone or in combination with another radical denotes an acyclic, saturated, branched or linear hydrocarbon radical with 1 to n C atoms.
  • C 1-5 -alkyl embraces the radicals H 3 C—, H 3 C—CH 2 —, H 3 C—CH 2 —CH 2 —, H 3 C—CH(CH 3 )—, H 3 C—CH 2 —CH 2 —CH 2 —, H 3 C—CH 2 —CH(CH 3 )—, H 3 C—CH(CH 3 )—CH 2 —, H 3 C—C(CH 3 ) 2 —, H 3 C—CH 2 —CH 2 —CH 2 —CH 2 —, H 3 C—CH 2 —CH(CH 3 )—, H 3 C—CH 2 —CH(CH 3 )—CH 2 —, H 3 C—CH(CH 3 )—CH 2 —CH 2 —, H 3 C—CH(CH 3 )—CH 2 —CH 2 —, H 3 C—CH 2 —C(CH 3 ) 2 —, H 3 C—C(CH 3 ) 2 —CH 2 —, H 3 C—CH(
  • C 3-n -cycloalkyl wherein n is an integer from 4 to n, either alone or in combination with another radical denotes a cyclic, saturated, unbranched hydrocarbon radical with 3 to n C atoms.
  • C 3-7 -cycloalkyl includes cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl and cycloheptyl.
  • carrier or “carbocycle” as used either alone or in combination with another radical, means a mono- bi- or tricyclic ring structure consisting of 3 to 14 carbon atoms.
  • carrier or “carbocycle” refers to fully saturated and aromatic ring systems and partially saturated ring systems.
  • carrier or “carbocycle” encompasses fused, bridged and spirocyclic systems.
  • aryl as used herein, either alone or in combination with another radical, denotes a carbocyclic aromatic monocyclic group containing 6 carbon atoms which is optionally further fused to a second five- or six-membered, carbocyclic group which is optionally aromatic, saturated or unsaturated.
  • Aryl includes, but is not limited to, phenyl, indanyl, indenyl, naphthyl, anthracenyl, phenanthrenyl, tetrahydronaphthyl and dihydronaphthyl.
  • heterocyclyl or “heterocycle” is intended to include all the possible isomeric forms.
  • heterocyclyl or “heterocycle” includes the following exemplary structures which are not depicted as radicals as each form are optionally attached through a covalent bond to any atom so long as appropriate valences are maintained:
  • heteroaryl is intended to include all the possible isomeric forms.
  • heteroaryl includes the following exemplary structures which are not depicted as radicals as each form are optionally attached through a covalent bond to any atom so long as appropriate valences are maintained:
  • Suitable preparations for administering the compounds of formula 1 will be apparent to those with ordinary skill in the art and include for example tablets, pills, capsules, suppositories, lozenges, troches, solutions, syrups, elixirs, sachets, injectables, inhalatives and powders etc., preferably tablets.
  • Suitable tablets may be obtained, for example, by mixing one or more compounds according to formula I with known excipients, for example inert diluents, carriers, disintegrants, adjuvants, surfactants, binders and/or lubricants.
  • excipients for example inert diluents, carriers, disintegrants, adjuvants, surfactants, binders and/or lubricants.
  • a therapeutically effective amount for the purposes of this invention is meant a quantity of substance that is capable of obviating symptoms of illness or alleviating these symptoms, or which prolong the survival of a treated patient.
  • the compounds according to the present invention and their intermediates may be obtained using methods of synthesis which are known to the one skilled in the art and described in the literature of organic synthesis.
  • the compounds are obtained in analogous fashion to the methods of preparation explained more fully hereinafter, in particular as described in the experimental section.
  • the order in carrying out the reaction steps may be varied. Variants of the reaction methods that are known to the one skilled in the art but not described in detail here may also be used.
  • the compounds according to the invention are prepared by the methods of synthesis described hereinafter in which the substituents of the general formulae have the meanings given hereinbefore. These methods are intended as an illustration of the invention without restricting its subject matter and the scope of the compounds claimed to these examples. Where the preparation of starting compounds is not described, they are commercially obtainable or may be prepared analogously to known compounds or methods described herein. Substances described in the literature are prepared according to the published methods of synthesis.
  • pyridine A is treated with an appropriate vinylic boronic acid/boronic ester with palladium catalysis (e.g. tetrakis(triphenylphosphine)-palladium) to generate pyridine B.
  • palladium catalysis e.g. tetrakis(triphenylphosphine)-palladium
  • the cyclization to the partially saturated bicycle C is enabled by the use of strong acids (e.g. H 2 SO 4 or HCl).
  • the ester of heterocycle C is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (I).
  • pyridine A is treated with an appropriate allylic boronic acid/boronic ester with palladium catalysis (e.g. tetrakis(triphenylphosphine)-palladium) to generate pyridine B.
  • palladium catalysis e.g. tetrakis(triphenylphosphine)-palladium
  • the cyclization to the partially saturated bicycle C is performed by the use of strong acids (e.g. H 2 SO 4 or HCl).
  • the ester of heterocycle C is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (II).
  • pyridine A is treated with an appropriate propargylic alcohol with palladium and copper catalysis (e.g. tetrakis(triphenylphosphine)-palladium and CuI)) to generate pyridine B.
  • a catalytic hydrogenation e.g. Pd/C in presence of H 2
  • the cyclization to the partially saturated bicycle E is made by the use of strong acids (e.g. H 2 SO 4 or HCl).
  • the cyclization can be done via a two-step mechanism where a leaving group is installed (e.g. chloride via treatment with of substrate with thionylchloride) prior to the cyclization conditions (pyridine D).
  • the ester of heterocycle E is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (II).
  • pyridine A is treated with an appropriate homo-propargylic alcohol under palladium catalysis (e.g. tetrakis(triphenylphosphine)-palladium) to generate pyridine B.
  • palladium catalysis e.g. tetrakis(triphenylphosphine)-palladium
  • the cyclization to the partially saturated bicycle D is made by the use of strong acids (e.g. H 2 SO 4 or HCl).
  • the ester of heterocycle D is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (III).
  • ambient temperature and “room temperature” are used interchangeably and designate a temperature of about 20° C.
  • the crude product is purified by column chromatography (silica gel; CyH/EtOAc) and the solvents are removed in vacuo.
  • example XVIII.3 in 1 mL trichloromethane are added 72.6 ⁇ L (1.00 mmol) thionylchloride and the mixture is stirred at 60° C. overnight. Additional 73 ⁇ L (1.00 mmol) thionylchloride are added and the mixture is stirred at 60° C. for 3 h. The solvent is removed in vacuo and the crude product is purified by HPLC (ACN/H 2 O/TFA).
  • example 8.1 160 mg (0.39 mmol) example 8.1 are separated into its diastereoisomers by chiral SFC (method K).
  • test compounds are dissolved in 100% DMSO at a concentration of 10 mM and in a first step diluted in DMSO to a concentration of 5 mM, followed by serial dilution steps in 100% DMSO. Dilution factor and number of dilution steps may vary according to needs. Typically 8 different concentrations by 1:5 dilutions are prepared, a further intermediate dilutions of the substances is carried out with assay buffer resulting in 1% final DMSO concentration in the assay.
  • 0.1 nM of FLAG-tagged Vanin-1 (AA 22-493, T26I, produced internally) and test compounds are incubated at room temperature for 20 minutes in assay buffer (1 mM DTT, 0.0025% Brij-35, 50 mM HEPES, pH7.5).
  • D-Pantethine (Sigma, Cat #P2125-5G) in assay buffer is added (final concentration 3 ⁇ M) and incubated for additional 30 minutes at room temperature.
  • Total assay volume typically is 40 ⁇ l but might be adjusted according to needs. Reaction is stopped by adding equal volume of stop solution as the reaction mixture to reach 100 nM HD-pantothenic acid (as an internal standard) and 1% TFA.
  • Assay plates are centrifuged for 2 minutes and the formation of pantothenic acid is detected by RapidFire Mass Spectrometry (mobile phase A: 0.1% formic acid and 0.01% trifluoroacetic acid in water; mobile phase B: 47.5% acetonitrile, 47.5% methanol, 0.1% formic acid and 0.01% trifluoroacetic acid in water) using a C18, 12 ⁇ L cartridge (Agilent Cat #G9205A).
  • Table I results from measurements of one or more samples. In case of multiple measurements the geometric mean values are given.
  • Pantetheinase converts panteheine into pantothenic acid and cysteamine. Accordingly, in the described protocol vanin activity is quantified by formation of pantothenic acid after pantetheine supplementation via pantethine.
  • the assay is applicable to identify vanin inhibitors. Compound stocks were dissolved in DMSO at 10 mM. Further dilutions were performed in RPMI 1640 medium (Gibco, #A-10491-01) and final concentrations in the assay were 0.032 nM-500 nM.
  • Volatiles are removed in vacuo and the residue is purified by column chromatography (Biotage KP-Nh cartridge, 0-10% MeOH/EtOAc).

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Abstract

The present invention encompasses compounds of the formula I
Figure US20210059992A1-20210304-C00001
which are suitable for the treatment of diseases related to Vanin, and processes for making these compounds, pharmaceutical preparations containing these compounds, and their methods of use.

Description

    BACKGROUND OF THE INVENTION 1. Technical Field
  • The present invention relates to novel compounds which inhibit Vanin, pharmaceutical compositions containing the same and their use as medicaments.
    • 2. Background Information
  • Isoforms 1 and 2 of Vanin enzymes are single-domain extracellular pantetheinases that catalyze the cleavage of pantethine and pantetheine into pantothenic acid and cystamine and cysteamine, respectively (Martin, Immunogenetics, (2001 May-Jun) Vol. 53, No. 4, pp. 296-306). Generation of cysteamine has been linked to increased oxidative in tissue stress resulting from decreased glutathione levels, a condition characteristic of many pathological conditions, including IBD (Xavier, Nature. 2011 Jun. 15; 474 (7351):307-17), cancer (Sosa, Ageing research reviews, (2013 Jan) Vol. 12, No. 1, pp. 376-90) and diabetes (Lipinski, Journal of diabetes and its complications, (2001 Jul-Aug) Vol. 15, No. 4, pp. 203-10).
  • Increased Vanin-1 activity in the gut epithelium has been implicated in promoting tissue damage and inflammation by reducing resistance to oxidative stress in murine models (Naquet, Biochem Soc Trans. 2014 August; 42(4):1094-100); (Berruyer, Molecular and cellular biology, (2004 August) Vol. 24, No. 16, pp. 7214-24); (Berruyer, The Journal of experimental medicine, (2006 Dec. 25) Vol. 203, No. 13, pp. 2817-27); (Pouyet, Inflammatory bowel diseases, (2010 January) Vol. 16, No. 1, pp. 96-104). Homozygous VNN1 knock-out (KO) mice lack appreciable levels of cysteamine in blood and tissues and show glutathione-mediated tissue resistance to oxidative stress (Berruyer, The Journal of experimental medicine, (2006 Dec. 25) Vol. 203, No. 13, pp. 2817-27). In addition, these mice are protected from intestinal injury in TNBS, DSS and Schistosoma-induced colitis models (Berruyer, The Journal of experimental medicine, (2006 Dec. 25) Vol. 203, No. 13, pp. 2817-27; Pouyet, Inflammatory bowel diseases, (2010 Jan) Vol. 16, No. 1, pp. 96-104; Martin, The Journal of clinical investigation, (2004 February) Vol. 113, No. 4, pp. 591-7). Given rodents lack Vanin-2, their only source of cysteamine is from Vanin-1, therefore the protective phenotype of the VNN1 KO mouse is attributed to the lack of cysteamine.
  • In humans, Vanin-1 was observed to be upregulated in intestinal epithelium in tissue biopsies from UC and CD patients and a functional polymorphism in the regulatory region of the VNN1 gene which led to increased VNN1 expression was associated with increased IBD susceptibility (P=0.0003 heterozygous vs. wild-type) (Gensollen, Inflammatory bowel diseases, (2013 October) Vol. 19, No. 11, pp. 2315-25).
  • In addition, upregulation of Vanin-1 activity in the skin and blood has been linked to development and severity of fibrosis in Systemic Sclerosis patients (Kavian, Journal of immunology (Baltimore, Md.: 1950), (20161015) Vol. 197, No. 8, pp. 3326-3335), and elevated levels of Vanin-1 have been observed in chronic Juvenile Idiopathic Thrombocytopenia (Zhang, Blood, (2011 Apr. 28) Vol. 117, No. 17, pp. 4569-79), Psoriasis and Atopic Dermatitis (Jansen, The Journal of investigative dermatology, (2009 Sep) Vol. 129, No. 9, pp. 2167-74).
  • Elevated Vanin-1 expression and activity are also present and serve as biomarkers for pancreatic cancer associated new-onset diabetes (Kang, Cancer Letters (New York, N.Y., United States) (2016), 373(2), 241-250) and are also correlated with poor prognosis and response to treatment in colorectal cancer (Chai, American journal of translational research, (2016) Vol. 8, No. 10, pp. 4455-4463).
  • WO2014048547, WO2018011681 and WO2016193844 disclose Vanin inhibitors for the treatment of a series of diseases e.g. Crohn' s disease and ulcerative colitis.
  • The problem to be solved by the present invention is to provide novel compounds which act as inhibitors of Vanin enzymes, preferably as inhibitors of the Vanin-1 enzyme.
  • It has been surprisingly found that the compounds of the present invention have potent Vanin-1 inhibitors activity, preferably exhibiting an inhibition of VNN-1 IC50 [nM]<100, more preferred IC50 [nM]<10, particularly preferred IC50 [nM]<1.
  • Drugs with long residence times in the body are preferred because they remain effective for a longer period of time and therefore can be used in lower doses. Surprisingly the compounds of the present invention indicate favorable mean residence times (MRT).
  • Moreover the compounds of the present invention exhibit further capacities, which are favorable for their pharmacokinetic and pharmacological profile, e.g. good solubility and good metabolic stability. Furthermore the compounds of the present invention show a good chemical stability.
    • DETAILED DESCRIPTION OF THE INVENTION
  • It has surprisingly been found that the problem mentioned above is solved by compounds of formula I of the present invention.
  • The present invention therefore relates to a compound of formula I
  • Figure US20210059992A1-20210304-C00002
      • wherein
      • n denotes 1, 2 or 3;
      • m denotes 1, 2 or 3;
      • R1 and R2 are independently from each other selected from the group consisting of H, C1-4-alkyl optionally substituted by 1-3 F-atoms or C1-2-alkoxy, 6-10 membered aryl substituted by R2.1 and 5-6 membered heteroaryl substituted by R2.1,
        • wherein
        • R2.1 is selected from the group consisting of H, F , Cl, Br, —CN, NR2.1.1R2.1.2, —SO2R2.1.3 and —OR2.1.4,
          • wherein
          • R2.1.1, R2.1.2 independently from each other denote H, C1-4-alkyl or C3-4-cycloalkyl;
          • or
          • R2.1.1 and R2.1.2 together with the N-atom to which they are attached form a 4-5 membered heterocyclyl or a 6 membered heterocyclyl optionally containing one additional heteroatom selected from the group consisting of N and O;
          • R2.1.3, denotes C1-4-alkyl or NR2.1.1R2.1.2,
          • R2.1.4 is selected from the group consisting of H, C1-4-alkyl, C3-5-cycoalkyl, 4-5 membered heterocyclyl containg 1 heteroatom selected from the group consisting of N and O.
          • wherein in the definition of R2.1.1, R2.1.2, R2.1.3 and R2.1.4 mentioned alkyl, cycloalkyl and heterocyclyl are optionally substituted by 1-3 F-atoms or one C1-2-alkoxy;
      • or
      • R1 and R2 together may form a 3-5 membered carbocycle or 4-6 membered heterocyclyl containing one heteroatom selected from the group consisting of N and O;
      • R3 denotes NR3.1R3.2;
      • or
      • R3 denotes a group of formula R3.a or R3.b
  • Figure US20210059992A1-20210304-C00003
      • wherein
      • X denotes CH2, NRX or O;
        • wherein RX denotes H or C1-3-alkyl;
      • R3.1 is selected from the group consisting of C1-4-alkyl-CO— optionally substituted by 1-3 F-atoms, C3-4-cycloalkyl or C1-2-alkoxy, R3.1.3R3.1.4N—CO—, R3.1.5O—CO—, pyrimidine, pyridine, C3-5-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2, 4-6-membered-heterocyclyl-CO— substituted with R3.1.1 and R3.1.2, —CO-phenyl substituted with R3.1.1 and R3.1.2;
      • wherein
        • R3.1.1, R3.1.2 independently from each other are selected from the group consisting of H, CH3, —OR3.1.1.1, F and —CN;
        • R3.1.3, R3.1.4 independently from each other denote H, C1-4-alkyl or C3-4-cycloalkyl;
        • or
        • R3.1.3 and R3.1.4 together with the N-atom to which they are attached form a form a 4-5 membered heterocyclyl or a 6 membered heterocyclyl optionally containing one additional heteroatom selected from the group consisting of N and O;
        • R3.1.5 is selected from the group consisting of C1-4-alkyl, C3-5-cycloalkyl, 4-5 membered heterocyclyl and C3-4-cycloalkyl-CH2—;
        • R3.1.1.1 denotes C1-4-alkyl, C3-5-cycloalkyl or 4-5 membered heterocyclyl;
        • wherein in the definition of R3.1.1, R3.1.2, R3.1.3, R3.1.4, R3.1.5 and R3.1.1.1 mentioned alkyl, cycloalkyl and heterocyclyl are optionally substituted by 1-3 F-atoms or one C1-2-alkoxy;
      • R3.2 is selected from the group consisting of H, C1-4-alkyl , C3-4-cycloalkyl, C3-4-cycloalkyl-C1-2-alkyl- and phenyl-C1-2-alkyl-;
      • wherein in the definition of R3.2 mentioned alkyl, cycloalkyl and phenyl are optionally substituted by 1-3 F-atoms or one C1-2-alkoxy;
  • R4 denotes hydrogen or C1-4-alkyl optionally substituted with 1 to 3 F-atoms; or
  • R3 and R4 together form a 4-6-membered heterocycle containing one oxygen atom; or a pharmaceutically acceptable salt thereof.
    • Preferred Embodiments
  • In another embodiment of the present invention m denotes 1 or 2.
  • In another embodiment of the present invention m denotes 1.
  • In another embodiment of the present invention m denotes 2.
  • In another embodiment of the present invention m denotes 3.
  • In another embodiment of the present invention n denotes 1 or 2.
  • In another embodiment of the present invention n denotes 1.
  • In another embodiment of the present invention n denotes 2.
  • In another embodiment of the present invention R1 denotes H or methyl.
  • In another embodiment of the present invention R1 denotes H.
  • In another embodiment of the present invention R1 denotes methyl.
  • In another embodiment of the present invention R2 denotes methyl, ethyl, pyrimidine or phenyl substituted by R2.1,
  • wherein
  • R2.1 is selected from the group consisting of H, F, Cl and —CN.
  • In another embodiment of the present invention R2 denotes methyl or phenyl substituted by R2.1.
  • In another embodiment of the present invention R2 denotes methyl, ethyl, pyrimidine or phenyl.
  • In another embodiment of the present invention R2 denotes methyl or ethyl.
  • In another embodiment of the present invention R2 denotes methyl.
  • In another embodiment of the present invention R2 denotes ethyl.
  • In another embodiment of the present invention R2 denotes pyrimidine.
  • In another embodiment of the present invention R2 denotes phenyl substituted by R2.1.
  • In another embodiment of the present invention R2.1 denotes H, F, Cl or CN.
  • In another embodiment of the present invention R2.1 denotes H.
  • In another embodiment of the present invention R2.1 denotes F.
  • In another embodiment of the present invention R2.1 denotes Cl.
  • In another embodiment of the present invention R2.1 denotes CN.
  • In another embodiment of the present invention
      • R3 denotes NR3.1R3.2,
      • or
      • R3 denotes a group of formula R3.a
  • Figure US20210059992A1-20210304-C00004
      • wherein
      • X denotes CH2 or O;
      • R3.1 denotes —COCH3, pyrimidine, C3-4-cycloalkyl-CO— substituted with
      • R3.1.1 and R3.1.2
      • wherein
        • R3.1.1, R3.1.2 independently from each other denote H, CH3, F or —CN;
      • R3.2 denotes CH3,
  • In another embodiment of the present invention R3 denotes NR3.1R3.2.
  • In another embodiment of the present invention R3 denotes a group of formula R3.a.
  • Figure US20210059992A1-20210304-C00005
  • In another embodiment of the present invention R3 denotes a group of formula R3.b.
  • Figure US20210059992A1-20210304-C00006
  • In another embodiment of the present invention X denotes CH2.
  • In another embodiment of the present invention X denotes O.
  • In another embodiment of the present invention X denotes NRX.
  • In another embodiment of the present invention RX denotes H or C1-3-alkyl.
  • In another embodiment of the present invention RX denotes H.
  • In another embodiment of the present invention RX denotes C1-3-alkyl, preferably methyl.
  • In another embodiment of the present invention R3.1 denotes —COCH3, pyrimidine, C3-4-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2,
  • wherein R3.1.1, R3.1.2 independently from each other denote H, —CH3, F or —CN.
  • In another embodiment of the present invention R3.1 denotes —CO—C1-4-alkyl.
  • In another embodiment of the present invention R3.1 denotes —COCH3.
  • In another embodiment of the present invention R3.1 denotes pyrimidine.
  • In another embodiment of the present invention R3.1 denotes C3-4-cycloalkyl-CO—.
  • In another embodiment of the present invention R3.1 denotes cyclopropyl-CO— substituted with R3.1.1 and R3.1.2.
  • In another embodiment of the present invention R3.1 denotes cyclobutyl-CO— substituted with R3.1.1 and R3.1.2.
  • In another embodiment of the present invention R3.1.1, R3.1.2 independently from each other denote H, CH3, F or —CN.
  • In another embodiment of the present invention R3.1.ldenotes H.
  • In another embodiment of the present invention R3.1.2denotes H.
  • In another embodiment of the present invention R3.1.1 and R3.1.2 denote H.
  • In another embodiment of the present invention R3.2 denotes CH3.
  • In another embodiment of the present invention R4 denotes hydrogen.
  • In another embodiment of the present invention R3 and R4 together form a 6-membered heterocycle containing one oxygen atom.
  • A preferred embodiment of the current invention is a compound of the formula I
  • Figure US20210059992A1-20210304-C00007
  • wherein
      • n denotes 1 or 2;
      • m denotes 1, 2 or 3;
      • R1 denotes H or methyl
      • R2 denotes methyl, ethyl, pyrimidine or phenyl substituted by R2.1, wherein
        • R2.1 is selected from the group consisting of H, F, Cl and —CN;
      • R3 denotes NR3.1R3.2,
      • or
      • R3 denotes a group of formula R3.a,
  • Figure US20210059992A1-20210304-C00008
      • wherein
      • X denotes CH2 or O;
      • R3.1 denotes —COCH3, pyrimidine or C3-4-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2
        • wherein
        • R3.1.1, R3.1.2 independently from each other denote H, CH3, F or —CN;
      • R3.2 denotes CH3;
      • R4 denotes hydrogen;
      • or
      • R3 and R4 together form a 6-membered heterocycle containing one oxygen atom; or a pharmaceutically acceptable salt thereof.
  • A preferred embodiment of the current invention is a compound of the formula I
  • Figure US20210059992A1-20210304-C00009
  • wherein
      • n denotes 1 or 2;
      • m denotes 1;
      • R1 denotes methyl
      • R2 denotes methyl or phenyl substituted by R2.1,
        • wherein
        • R2.1 is selected from the group consisting of H, F, Cl and —CN;
        • R3 denotes NR3.1R3.2,
        • or
        • R3 denotes a group of formula R3.a,
  • Figure US20210059992A1-20210304-C00010
      • wherein
      • X denotes CH2 or O;
      • R3.1 denotes —COCH3, pyrimidine, C3.4-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2,
        • wherein
        • R3.1.1, R3.1.2 independently from each other denote H, CH3, F or —CN
      • R3.2 denotes CH3;
      • R4 denotes hydrogen;
      • or
      • R3 and R4 together form a 6-membered heterocycle containing one oxygen atom; or a pharmaceutically acceptable salt thereof.
  • A preferred embodiment of the current invention is a compound of the formula I
  • Figure US20210059992A1-20210304-C00011
      • wherein
      • n denotes 1 or 2;
      • m denotes 2;
      • R1 denotes H or methyl;
      • R2 denotes methyl, ethyl, pyrimidin or phenyl;
      • R3 denotes NR3.1R3.2;
      • or
      • R3 denotes a group of formula R3.a
  • Figure US20210059992A1-20210304-C00012
      • wherein
      • X denotes CH2 or O
      • R3.1 denotes —COCH3, pyrimidine or C3-4-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2,
        • wherein
        • R3.1.1, R3.1.2 independently from each other denote H, CH3, F or —CN;
      • R3.2 denotes CH3;
      • R4 denotes hydrogen
      • or
      • R3 and R4 together form a 6-membered heterocycle containing one oxygen atom or a pharmaceutically acceptable salt thereof.
  • A further preferred embodiment of the current invention are the above compounds of formula I, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 13.3, 5.2, 13.1, 4.1, 11.10, 4.4, 11.9, 7.4, 4.3, 7.1, 8.3, 11.6, 10 and 9.3.
  • Figure US20210059992A1-20210304-C00013
    Figure US20210059992A1-20210304-C00014
    Figure US20210059992A1-20210304-C00015
    Figure US20210059992A1-20210304-C00016
  • or a pharmaceutically acceptable salt thereof.
  • A further preferred embodiment of the current invention are the above compounds of formula I, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 5.2, 4.1, 4.4, 7.4, 4.3, 7.1, 8.3, 10 and 9.3.
  • A further preferred embodiment of the current invention are the above compounds of formula I, selected from the group consisting of examples 13.1, 13.3, 11.10, 11.9 and 11.6.
  • A further preferred embodiment of the current invention is the compound of example 6.
  • A further preferred embodiment of the current invention is the compound of example 9.1
  • A further preferred embodiment of the current invention is the compound of example 8.2.
  • A further preferred embodiment of the current invention is the compound of example 5.3.
  • A further preferred embodiment of the current invention is the compound of example 2.1.
  • A further preferred embodiment of the current invention is the compound of example 7.2.
  • A further preferred embodiment of the current invention is the compound of example 13.3.
  • A further preferred embodiment of the current invention is the compound of example 5.2.
  • A further preferred embodiment of the current invention is the compound of example 13.1.
  • A further preferred embodiment of the current invention is the compound of example 4.1.
  • A further preferred embodiment of the current invention is the compound of example 11.10.
  • A further preferred embodiment of the current invention is the compound of example 4.4.
  • A further preferred embodiment of the current invention is the compound of example 11.9.
  • A further preferred embodiment of the current invention is the compound of example 7.4.
  • A further preferred embodiment of the current invention is the compound of example 4.3.
  • A further preferred embodiment of the current invention is the compound of example 7.1.
  • A further preferred embodiment of the current invention is the compound of example 8.3.
  • A further preferred embodiment of the current invention is the compound of example 11.6.
  • A further preferred embodiment of the current invention is the compound of example 10.
  • A further preferred embodiment of the current invention is the compound of example 9.3.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the above compounds of formula I, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 13.3, 5.2, 13.1, 4.1, 11.10, 4.4, 11.9, 7.4, 4.3, 7.1, 8.3, 11.6, 10 and 9.3.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the above compounds of formula I, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 5.2, 4.1, 4.4, 7.4, 4.3, 7.1, 8.3, 10 and 9.3.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the above compounds of formula I, selected from the group consisting of examples 13.1, 13.3, 11.10, 11.9 and 11.6.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 6.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 9.1
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 8.2.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 5.3.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 2.1.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 7.2.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 13.3.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 5.2.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 13.1.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 4.1.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 11.10.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 4.4.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 11.9.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 7.4.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 4.3.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 7.1.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 8.3.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 11.6.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 10.
  • A further preferred embodiment of the current invention are pharmaceutically acceptable salts of the compound of example 9.3.
  • A further preferred embodiment of the current invention are compounds of formula I, selected from the group consisting of the examples listed in Table A or pharmaceutically acceptable salts thereof.
  • TABLE A
    Racemates
    Figure US20210059992A1-20210304-C00017
    Figure US20210059992A1-20210304-C00018
    Figure US20210059992A1-20210304-C00019
    Figure US20210059992A1-20210304-C00020
    Figure US20210059992A1-20210304-C00021
    Figure US20210059992A1-20210304-C00022
    Figure US20210059992A1-20210304-C00023
    Figure US20210059992A1-20210304-C00024
    Figure US20210059992A1-20210304-C00025
    Figure US20210059992A1-20210304-C00026
    Figure US20210059992A1-20210304-C00027
    Figure US20210059992A1-20210304-C00028
    Figure US20210059992A1-20210304-C00029
    Figure US20210059992A1-20210304-C00030
    Figure US20210059992A1-20210304-C00031
    Figure US20210059992A1-20210304-C00032
    Figure US20210059992A1-20210304-C00033
    Figure US20210059992A1-20210304-C00034
  • A further preferred embodiment of the current invention are compounds of formula I, selected from the group consisting of the examples listed in Table B or pharmaceutically acceptable salts thereof.
  • TABLE B
    Figure US20210059992A1-20210304-C00035
    Figure US20210059992A1-20210304-C00036
    Figure US20210059992A1-20210304-C00037
    Figure US20210059992A1-20210304-C00038
    Figure US20210059992A1-20210304-C00039
    Figure US20210059992A1-20210304-C00040
    Figure US20210059992A1-20210304-C00041
    Figure US20210059992A1-20210304-C00042
    Figure US20210059992A1-20210304-C00043
    Figure US20210059992A1-20210304-C00044
    Figure US20210059992A1-20210304-C00045
    Figure US20210059992A1-20210304-C00046
    Figure US20210059992A1-20210304-C00047
    Figure US20210059992A1-20210304-C00048
  • Another embodiment of the present invention are compounds of formula IA or the pharmaceutically acceptable salts thereof.
  • Figure US20210059992A1-20210304-C00049
  • Another embodiment of the present invention are compounds of formula IB or the pharmaceutically acceptable salts thereof.
  • Figure US20210059992A1-20210304-C00050
  • Another embodiment of the present invention are compounds of formula IC or the pharmaceutically acceptable salts thereof.
  • Figure US20210059992A1-20210304-C00051
  • Another embodiment of the present invention are compounds of formula ID or the pharmaceutically acceptable salts thereof.
  • Figure US20210059992A1-20210304-C00052
  • Any and each of the definitions of R1, R2, R3, R4, R2.1, R2.1.1, R2.1.2, R2.1.3, R2.1.4, R3.1, R3.1.1, R3.1.2, R3.1.3, R3.1.4, R3.1.5, R3.1.1.1, R3.2, RX, m, n and X may be combined with each other,
  • A further embodiment of the current invention is a pharmaceutical composition comprising a therapeutically effective amount of at least one compound of formula I or a pharmaceutically acceptable salt thereof and one or more pharmaceutically acceptable excipients.
  • A further embodiment of the current invention is a compound of formula I or a pharmaceutically acceptable salt thereof for use as a medicament.
  • Furthermore, the present invention relates to the use of a compound of general formula I for the treatment and/or prevention of a disease and/or condition associated with or modulated by Vanin-1 or Vanin-2, especially Vanin-1, including but not limited to the treatment and/or prevention of inflammatory diseases, preferably inflammatory bowel diseases.
  • A further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from Crohn's disease, ulcerative colitis, atopic dermatitis, systemic sclerosis, Non-Alcoholic Steatohepathitis (NASH), psoriasis, chronic kidney disease, chronic obstructive pulmonary disease, idiopathic pulmonary fibrosis, rheumatoid arthritis, scleroderma, asthma, allergic rhinitis, allergic eczema, juvenile rheumatoid arthritis, juvenile idiopathic arthritis, graft versus host disease, psoriatic arthritis, Hyperlipidemia, colorectal cancer or pancreatic cancer related new onset diabetes.
  • A further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from Crohn's disease, ulcerative colitis, systemic sclerosis, Non-Alcoholic Steatohepathitis (NASH), chronic obstructive pulmonary disease or atopic dermatitis, preferably Crohn's disease, ulcerative colitis, systemic sclerosis, Non-Alcoholic Steatohepathitis (NASH) or atopic dermatitis, particularly preferred from Crohn's disease or ulcerative colitis.
  • A further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from moderate to severe Crohn's disease.
  • A further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from ulcerative colitis.
  • A further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from atopic dermatitis.
  • A further embodiment of the current invention is the use of a compound of formula I for treating a patient suffering from NASH.
  • In a further embodiment, there is provided a method of treating a disease chosen from Crohn's disease, ulcerative colitis, atopic dermatitis, systemic sclerosis, Non-Alcoholic Steatohepathitis (NASH), psoriasis, chronic kidney disease, chronic obstructive pulmonary disease, idiopathic pulmonary fibrosis, rheumatoid arthritis, scleroderma, asthma, allergic rhinitis, allergic eczema, juvenile rheumatoid arthritis, juvenile idiopathic arthritis, graft versus host disease, psoriatic arthritis, Hyperlipidemia, colorectal cancer or pancreatic cancer related new onset diabetes comprising administering to a patient a therapeutically effective amount of a compound according to the first embodiment or any of its related embodiments or a pharmaceutically acceptable salt thereof.
  • In a further embodiment, there is provided a process for preparation of a compound according to the first embodiment or any of its related embodiments by the methods shown herein below.
  • In a further aspect the present invention relates to a compound of general formula 1 for use in the treatment and/or prevention of above mentioned diseases and conditions.
  • In a further aspect the present invention relates to the use of a compound of general formula 1 for the preparation of a medicament for the treatment and/or prevention of above mentioned diseases and conditions.
  • In a further aspect the present invention relates to methods for the treatment or prevention of above mentioned diseases and conditions, which method comprises the administration of an effective amount of a compound of general formula 1 to a human being.
  • The actual pharmaceutically effective amount or therapeutic dosage will usually depend on factors known by those skilled in the art such as age and weight of the patient, route of administration and severity of disease. In any case the compounds will be administered at dosages and in a manner which allows a pharmaceutically effective amount to be delivered based upon patient's unique condition.
  • A further embodiment of the current invention is a pharmaceutical composition comprising additionally to a compound of formula I, a pharmaceutically active compound selected from the group consisting of an immunomodulatory agent, anti-inflammatory agent, or a chemotherapeutic agent. Examples of such agents include but are not limited to cyclophosphamide, mycophenolate (MMF), hydroxychloroquine, glucocorticoids, corticosteroids, immunosuppressants, NSAIDs, non-specific and COX-2 specific cyclooxygenase enzyme inhibitors, tumour necrosis factor receptor (TNF) receptors antagonists, IL12/23 and IL23 antagonists, α4β7 integrin blocking antibodies, non-selective and selective JAK kinase inhibitors and methotrexate, but also combinations of two or three active substances.
    • Definitions
  • Terms not specifically defined herein should be given the meanings that would be given to them by one of skill in the art in light of the disclosure and the context. As used in the specification, however, unless specified to the contrary, the following terms have the meaning indicated and the following conventions are adhered to.
  • In the groups, radicals, or moieties defined below, the number of carbon atoms is often specified preceding the group, for example, C1-6-alkyl means an alkyl group or radical having 1 to 6 carbon atoms. In general in groups like HO, H2N, (O)S, (O)2S, CN (cyano), HOOC, F3C or the like, the skilled artisan can see the radical attachment point(s) to the molecule from the free valences of the group itself. For combined groups comprising two or more subgroups, the last named subgroup is the radical attachment point, for example, the substituent “aryl-C1-3-alkyl” means an aryl group which is bound to a C1-3-alkyl-group, the latter of which is bound to the core or to the group to which the substituent is attached.
  • In case a compound of the present invention is depicted in form of a chemical name and as a formula in case of any discrepancy the formula shall prevail.
  • The numeration of the atoms of a substituent starts with the atom which is closest to the core or to the group to which the substituent is attached.
  • For example, the term “3-carboxypropyl-group” represents the following substituent:
  • Figure US20210059992A1-20210304-C00053
  • wherein the carboxy group is attached to the third carbon atom of the propyl group. The terms “1-methylpropyl-”, “2,2-dimethylpropyl-” or “cyclopropylmethyl-” group represent the following groups:
  • Figure US20210059992A1-20210304-C00054
  • The asterisk may be used in sub-formulas to indicate the bond which is connected to the core molecule as defined.
  • The term “substituted” as used herein, means that any one or more hydrogens on the designated atom is replaced with a selection from the indicated group, provided that the designated atom's normal valence is not exceeded, and that the substitution results in a stable compound. Unless specifically indicated, throughout the specification and the appended claims, a given chemical formula or name shall encompass tautomers and all stereo, optical and geometrical isomers (e.g. enantiomers, diastereomers, E/Z isomers etc . . . ) and racemates thereof as well as mixtures in different proportions of the separate enantiomers, mixtures of diastereomers, or mixtures of any of the foregoing forms where such isomers and enantiomers exist, as well as salts, including pharmaceutically acceptable salts thereof and solvates thereof such as for instance hydrates including solvates of the free compounds or solvates of a salt of the compound.
  • In general, substantially pure stereoisomers can be obtained according to synthetic principles known to a person skilled in the field, e.g. by separation of corresponding mixtures, by using stereochemically pure starting materials and/or by stereoselective synthesis. It is known in the art how to prepare optically active forms, such as by resolution of racemic forms or by synthesis, e.g. starting from optically active starting materials and/or by using chiral reagents. Enantiomerically pure compounds of this invention or intermediates may be prepared via asymmetric synthesis, for example by preparation and subsequent separation of appropriate diastereomeric compounds or intermediates which can be separated by known methods (e.g. by chromatographic separation or crystallization) and/or by using chiral reagents, such as chiral starting materials, chiral catalysts or chiral auxiliaries.
  • Further, it is known to the person skilled in the art how to prepare enantiomerically pure compounds from the corresponding racemic mixtures, such as by chromatographic separation of the corresponding racemic mixtures on chiral stationary phases; or by resolution of a racemic mixture using an appropriate resolving agent, e.g. by means of diastereomeric salt formation of the racemic compound with optically active acids or bases, subsequent resolution of the salts and release of the desired compound from the salt; or by derivatization of the corresponding racemic compounds with optically active chiral auxiliary reagents, subsequent diastereomer separation and removal of the chiral auxiliary group; or by kinetic resolution of a racemate (e.g. by enzymatic resolution); by enantioselective crystallization from a conglomerate of enantiomorphous crystals under suitable conditions; or by (fractional) crystallization from a suitable solvent in the presence of an optically active chiral auxiliary.
  • The phrase “pharmaceutically acceptable” is employed herein to refer to those compounds, materials, compositions, and/or dosage forms which are, within the scope of sound medical judgment, suitable for use in contact with the tissues of human beings and animals without excessive toxicity, irritation, allergic response, or other problem or complication, and commensurate with a reasonable benefit/risk ratio.
  • As used herein, “pharmaceutically acceptable salt” refer to derivatives of the disclosed compounds wherein the parent compound is modified by making acid or base salts thereof. Examples of pharmaceutically acceptable salts include, but are not limited to, mineral or organic acid salts of basic residues such as amines; alkali or organic salts of acidic residues such as carboxylic acids; and the like.
  • For example, such salts include salts from benzenesulfonic acid, benzoic acid, citric acid, ethanesulfonic acid, fumaric acid, gentisic acid, hydrobromic acid, hydrochloric acid, maleic acid, malic acid, malonic acid, mandelic acid, methanesulfonic acid, 4-methyl-benzenesulfonic acid, phosphoric acid, salicylic acid, succinic acid, sulfuric acid and tartaric acid.
  • Further pharmaceutically acceptable salts can be formed with cations from ammonia, L-arginine, calcium, 2,2′-iminobisethanol, L-lysine, magnesium, N-methyl-D-glucamine , potassium, sodium and tris(hydroxymethyl)-aminomethane.
  • The pharmaceutically acceptable salts of the present invention can be synthesized from the parent compound which contains a basic or acidic moiety by conventional chemical methods. Generally, such salts can be prepared by reacting the free acid or base forms of these compounds with a sufficient amount of the appropriate base or acid in water or in an organic diluent like ether, ethyl acetate, ethanol, isopropanol, or acetonitrile, or a mixture thereof.
  • Salts of other acids than those mentioned above which for example are useful for purifying or isolating the compounds of the present invention (e.g. trifluoro acetate salts,) also comprise a part of the invention.
  • The term halogen generally denotes fluorine, chlorine, bromine and iodine.
  • The term “C1-n-alkyl”, wherein n is an integer selected from 2, 3, 4, 5 or 6, preferably 4 or 6, either alone or in combination with another radical denotes an acyclic, saturated, branched or linear hydrocarbon radical with 1 to n C atoms. For example the term C1-5-alkyl embraces the radicals H3C—, H3C—CH2—, H3C—CH2—CH2—, H3C—CH(CH3)—, H3C—CH2—CH2—CH2—, H3C—CH2—CH(CH3)—, H3C—CH(CH3)—CH2—, H3C—C(CH3)2—, H3C—CH2—CH2—CH2—CH2—, H3C—CH2—CH2—CH(CH3)—, H3C—CH2—CH(CH3)—CH2—, H3C—CH(CH3)—CH2—CH2—, H3C—CH2—C(CH3)2—, H3C—C(CH3)2—CH2—, H3C—CH(CH3)—CH(CH3)— and H3C—CH2—CH(CH2CH3)—.
  • The term “C3-n-cycloalkyl”, wherein n is an integer from 4 to n, either alone or in combination with another radical denotes a cyclic, saturated, unbranched hydrocarbon radical with 3 to n C atoms. For example the term C3-7-cycloalkyl includes cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl and cycloheptyl.
  • The term “carbocyclyl” or “carbocycle” as used either alone or in combination with another radical, means a mono- bi- or tricyclic ring structure consisting of 3 to 14 carbon atoms. The term “carbocyclyl” or “carbocycle” refers to fully saturated and aromatic ring systems and partially saturated ring systems. The term “carbocyclyl” or “carbocycle” encompasses fused, bridged and spirocyclic systems.
  • Figure US20210059992A1-20210304-C00055
  • The term “aryl” as used herein, either alone or in combination with another radical, denotes a carbocyclic aromatic monocyclic group containing 6 carbon atoms which is optionally further fused to a second five- or six-membered, carbocyclic group which is optionally aromatic, saturated or unsaturated. Aryl includes, but is not limited to, phenyl, indanyl, indenyl, naphthyl, anthracenyl, phenanthrenyl, tetrahydronaphthyl and dihydronaphthyl.
  • The term “heterocyclyl” or “heterocycle” means a saturated or unsaturated mono- or polycyclic-ring systems including aromatic ring system containing one or more heteroatoms selected from N, O or S(O)r, wherein r=0, 1 or 2, consisting of 3 to 14 ring atoms wherein none of the heteroatoms is part of the aromatic ring. The term “heterocyclyl” or “heterocycle” is intended to include all the possible isomeric forms.
  • Thus, the term “heterocyclyl” or “heterocycle” includes the following exemplary structures which are not depicted as radicals as each form are optionally attached through a covalent bond to any atom so long as appropriate valences are maintained:
  • Figure US20210059992A1-20210304-C00056
    Figure US20210059992A1-20210304-C00057
    Figure US20210059992A1-20210304-C00058
    Figure US20210059992A1-20210304-C00059
    Figure US20210059992A1-20210304-C00060
  • The term “heteroaryl” means a mono- or polycyclic-ring systems containing one or more heteroatoms selected from N, O or S(O)r, wherein r=0, 1 or 2, consisting of 5 to 14 ring atoms wherein at least one of the heteroatoms is part of aromatic ring. The term “heteroaryl” is intended to include all the possible isomeric forms.
  • Thus, the term “heteroaryl” includes the following exemplary structures which are not depicted as radicals as each form are optionally attached through a covalent bond to any atom so long as appropriate valences are maintained:
  • Figure US20210059992A1-20210304-C00061
  • Many of the terms given above may be used repeatedly in the definition of a formula or group and in each case have one of the meanings given above, independently of one another.
  • Suitable preparations for administering the compounds of formula 1 will be apparent to those with ordinary skill in the art and include for example tablets, pills, capsules, suppositories, lozenges, troches, solutions, syrups, elixirs, sachets, injectables, inhalatives and powders etc., preferably tablets.
  • Suitable tablets may be obtained, for example, by mixing one or more compounds according to formula I with known excipients, for example inert diluents, carriers, disintegrants, adjuvants, surfactants, binders and/or lubricants.
  • By a therapeutically effective amount for the purposes of this invention is meant a quantity of substance that is capable of obviating symptoms of illness or alleviating these symptoms, or which prolong the survival of a treated patient.
  • List of Abbreviations
  •
    Ac Acetyl
    ACN Acetonitrile
    aq Aqueous
    Bn Benzyl
    Bu Butyl
    Boc tert-butyloxycarbonyl
    ° C. degree celsius
    cat Catalyst
    CD Crohn's disease
    conc concentrated
    CyH cyclohexane
    d day(s)
    DBU 1,8-Diazabicyclo(5.4.0)undec-7-ene
    DCM Dichloromethane
    DMAP 4-N,N-dimethylaminopyridine
    DMA Dimethylacetamide
    DME 1,2-dimethoxyethane
    DMF N,N-dimethylformamide
    DMSO Dimethylsulfoxide
    DIPE diisopropyl ether
    DIPEA N,N-diisopropylethylamine
    dppf 1.1′-bis(diphenylphosphino)ferrocene
    EDC 1-Ethyl-3-(3-dimethylamino-
    propyl)carbodiimide
    ESI electron spray ionization
    ESI-MS electrospray ionisation mass spectrometry
    Et Ethyl
    Et2O diethyl ether
    EtOAc ethyl acetate
    EtOH Ethanol
    Ex. example
    h hour(s)
    HATU N,N,N′,N′-tetramethyl-O-(7-azabenzotriazol-
    1-yl)uranium hexafluorophosphate
    HPLC high performance liquid chromatography
    HWB assay Human Whole Blood assay
    i Iso
    IBD Inflammatory Bowel Disease
    In intermediate
    IPAc Isopropyl acetate
    L liter
    LC liquid chromatography
    LiHMDS lithium bis(trimethylsilyl)amide
    Me Methyl
    MeOH Methanol
    min Minutes
    μL microliter
    mL milliliter
    MPLC medium pressure liquid chromatography
    MS mass spectrometry
    NBS N-bromo-succinimide
    NMP N-methylpyrrolidone
    NP normal phase
    n.a. not available
    PE petroleum ether
    PBS phosphate-buffered saline
    Ph Phenyl
    Pr Propyl
    Pyr Pyridine
    rac Racemic
    Rf (Rf) retention factor
    RP reversed phase
    Rt (HPLC) Retention time (HPLC)
    RT room temperature (about 20° C.)
    sat. saturated
    SFC supercritical fluid chromatography
    TBAF tetrabutylammonium fluoride
    TBME tert-butylmethylether
    TBTU benzotriazolyl tetramethyluronium
    tetrafluoroborate
    tBu tert-butyl
    TEA Triethylamine
    temp. Temperature
    tert Tertiary
    Tf Triflate
    TFA trifluoroacetic acid
    THF Tetrahydrofuran
    TLC thin-layer chromatography on SiO2
    Ts p-Tosyl
    TsOH p-toluenesulphonic acid
    UC Ulcerative colitis
    UV Ultraviolet
    VNN-1 Vanin-1
    VNN-2 Vanin-2
  • Features and advantages of the present invention will become apparent from the following detailed examples which illustrate the fundamentals of the invention by way of example without restricting its scope:
  • Preparation of the Compounds According to the Invention
  • General Synthetic Methods
  • The compounds according to the present invention and their intermediates may be obtained using methods of synthesis which are known to the one skilled in the art and described in the literature of organic synthesis. Preferably, the compounds are obtained in analogous fashion to the methods of preparation explained more fully hereinafter, in particular as described in the experimental section. In some cases, the order in carrying out the reaction steps may be varied. Variants of the reaction methods that are known to the one skilled in the art but not described in detail here may also be used.
  • The general processes for preparing the compounds according to the invention will become apparent to the one skilled in the art studying the following schemes. Starting materials may be prepared by methods that are described in the literature or herein, or may be prepared in an analogous or similar manner. Any functional groups in the starting materials or intermediates may be protected using conventional protecting groups. These protecting groups may be cleaved again at a suitable stage within the reaction sequence using methods familiar to the one skilled in the art.
  • The compounds according to the invention are prepared by the methods of synthesis described hereinafter in which the substituents of the general formulae have the meanings given hereinbefore. These methods are intended as an illustration of the invention without restricting its subject matter and the scope of the compounds claimed to these examples. Where the preparation of starting compounds is not described, they are commercially obtainable or may be prepared analogously to known compounds or methods described herein. Substances described in the literature are prepared according to the published methods of synthesis.
  • Compounds of formula I may be prepared as shown in Scheme I below.
  • Figure US20210059992A1-20210304-C00062
  • In scheme I, pyridine A, is treated with an appropriate vinylic boronic acid/boronic ester with palladium catalysis (e.g. tetrakis(triphenylphosphine)-palladium) to generate pyridine B. The cyclization to the partially saturated bicycle C is enabled by the use of strong acids (e.g. H2SO4 or HCl). The ester of heterocycle C is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (I).
  • Compounds of formula II may be prepared as shown in Scheme II-a and II-b below.
  • Figure US20210059992A1-20210304-C00063
  • In scheme II-a, pyridine A, is treated with an appropriate allylic boronic acid/boronic ester with palladium catalysis (e.g. tetrakis(triphenylphosphine)-palladium) to generate pyridine B. The cyclization to the partially saturated bicycle C is performed by the use of strong acids (e.g. H2SO4 or HCl). The ester of heterocycle C is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (II).
  • Figure US20210059992A1-20210304-C00064
  • In scheme II-b, pyridine A, is treated with an appropriate propargylic alcohol with palladium and copper catalysis (e.g. tetrakis(triphenylphosphine)-palladium and CuI)) to generate pyridine B. After a catalytic hydrogenation (e.g. Pd/C in presence of H2) of the triple bond to pyridine C the cyclization to the partially saturated bicycle E is made by the use of strong acids (e.g. H2SO4 or HCl). Alternatively the cyclization can be done via a two-step mechanism where a leaving group is installed (e.g. chloride via treatment with of substrate with thionylchloride) prior to the cyclization conditions (pyridine D). The ester of heterocycle E is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (II).
  • Compounds of formula III may be prepared as shown in Scheme III-a and III-b below.
  • Figure US20210059992A1-20210304-C00065
  • In scheme III-a, pyridine A, is treated with an appropriate homo-propargylic alcohol under palladium catalysis (e.g. tetrakis(triphenylphosphine)-palladium) to generate pyridine B. After a catalytic hydrogenation of the triple bond (e.g. Pd/C in presence of H2) to pyridine C the cyclization to the partially saturated bicycle D is made by the use of strong acids (e.g. H2SO4 or HCl). The ester of heterocycle D is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (III).
  • Figure US20210059992A1-20210304-C00066
  • In scheme III-b, bicycle A, is carbonylated by the use of CO and MeOH in the presence of a Pd-catalyst system (e.g. 1,1′-Bis-(diphenylphosphino)-ferrocene and Pd(OAc)2). The ester of heterocycle B is hydrolysed (e.g. with aq. HCl) followed by an amide coupling (e.g. TBTU or HATU as coupling reagent) to afford the compound of general formula (III).
    • SYNTHETIC EXAMPLES
  • The Examples that follow are intended to illustrate the present invention without restricting it. The terms “ambient temperature” and “room temperature” are used interchangeably and designate a temperature of about 20° C.
  • Preparation of Starting Compounds
  • Intermediate I
  • Intermediate I.1 (General Route)
    • Methyl 6-amino-5-(2-methylprop-1-en-1-yl)pyridine-3-carboxylate
  • Figure US20210059992A1-20210304-C00067
  • To a mixture of 1.6 g (6.93 mmol) methyl 6-amino-5-bromopyridine-3-carboxylate in 13.9 mL (27.7 mmol; 2 mol/L) Na2CO3 solution and 30 mL dioxane are added 1.89 g (10.4 mmol) 4,4,5,5-tetramethyl-2-(2-methylprop -1-en-1-yl)-1,3,2-dioxaborolane and the mixture is purged with argon. Then 800 mg (0.69 mmol) tetrakis(triphenylphosphine)-palladium are added and the reaction mixture is stirred at 120° C. for 40 min. After cooling down to RT the reaction mixture is diluted with EtOAc and extracted with a mixture of sat. aq. NaHCO3 solution and water (1:1), the organic layer is dried over Na2SO4, filtered and the solvent is removed in vacuo. The remaining crude product is purified by column chromatography (silica gel; CyH/EtOAc 1/1).
  • C11H14N2O2 (M=206.2 g/mol)
  • ESI-MS: 207 [M+H]+
  • Rt (HPLC): 0.69 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate I.1) described above:
  • HPLC
    retention time
    (method)
    In. Starting material Structure EI-MS [min]
    I.2
    Figure US20210059992A1-20210304-C00068
    Figure US20210059992A1-20210304-C00069
         		221 [M + H]+ 0.90 (B)
  • Intermediate II
  • Intermediate II.1 (General Route)
    • Methyl 2,2-dimethyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carboxylate
  • Figure US20210059992A1-20210304-C00070
  • A mixture of 1.36 g (6.27 mmol) methyl 6-amino-5-(2-methylprop-1-en-1-yl)pyridine-3-carboxylate (I.1) in 10 mL (142.7 mmol) conc. H2SO4 is stirred at RT for 20 min. The mixture is poured onto ice water, basified with NaOH (4 mol/L) and extracted with DCM. The combined organic layers are dried over Na2SO4 and concentrated in vacuo to obtain the product.
  • C11H14N2O2 (M=206.2 g/mol)
  • ESI-MS: 207 [M+H]+
  • Rt (HPLC): 0.62 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate II.1) described above:
  • HPLC
    retention
    time
    Starting Reaction (method)
    In. material Structure conditions EI-MS [min]
    II.2 I.2
    Figure US20210059992A1-20210304-C00071
         		RT 30 min 221 [M + H]+ 0.61 (H)
  • Intermediate III
  • Intermediate III.1 (General Route)
    • 2,2 -Dimethyl-1H,2H,3H-pyrrolo [2,3-b]pyridine-5-carboxylic acid
  • Figure US20210059992A1-20210304-C00072
  • A mixture of 1.51 g (7.32 mmol) intermediate II.1 in 10 mL HCl (conc. 6 mol/L) is stirred at 100° C. for 35 min. After that the reaction mixture is cooled to RT, the precipitate is filtered off and dried to obtain the product.
  • C10H12N2O2*HCl (M=228.7 g/mol)
  • ESI-MS: 193 [M+H]+
  • Rt (HPLC): 0.54 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate III.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions EI-MS [min]
    III.2 II.2
    Figure US20210059992A1-20210304-C00073
         		80° C. 4.5 h 207 [M + H]+ 0.43 (B)
    III.3 XIX.1
    Figure US20210059992A1-20210304-C00074
         		90° C. 2 h evaporation to obtain crude product 221 [M + H]+ 0.65 (A)
    III.4 XXVI
    Figure US20210059992A1-20210304-C00075
         		75° C. 4 h 193 [M + H]+ 0.14 (B)
  • Intermediate IV
  • Intermediate IV.1 (General Route)
    • 1-[(1E)-1-Bromoprop-1-en-2-yl]-4-fluorobenzene
  • Figure US20210059992A1-20210304-C00076
  • 10.0 g (73.4 mmol) 1-Fluoro-4-(prop-1-en-2-yl)benzene are dissolved in 100 mL DCM and cooled to 0° C. Then 3.96 mL (77.1 mmol) Bromine are added dropwise at 0-5° C. and the reaction mixture is stirred at 0° C. until persistent coloring of the solution. The reaction mixture is allowed to warm to RT and stirring is continued for 1 h. 150 mL aq. Na2S2O3 solution (1 mol/L) are added and the organic layer is separated, dried and the solvent is removed in vacuo. To the crude intermediate are added 50 mL 2-methylpropan-2-ol and 9.89 g (88.1 mmol) KOtBu by several portions (caveat: exothermic). Finally the reaction mixture is stirred at 70° C. for 5 min. The mixture is cooled to RT, diluted with H2O and DCM and the layers are separated. The organic layer is dried and the solvents are removed in vacuo. The remaining residue is purified by vacuum distillation (0.03 mbar) to obtain the product.
  • C9H8BrF (M=215.1 g/mol)
  • EI-MS: 214/216 [M*]+
  • Rt (HPLC): 1.16 min (method I)
  • The following compounds are prepared according to the general procedure (Intermediate IV.1) described above:
  • HPLC
    retention
    time
    (method)
    In. Starting material Structure EI-MS [min]
    IV.2 XIV
    Figure US20210059992A1-20210304-C00077
         		214/216 [M*]+ 1.14 (A)
  • Intermediate V
  • Intermediate V.1 (General Route)
  • 1-[(1E)-1-Bromoprop-1-en-2-yl]-4-chlorobenzene
  • Figure US20210059992A1-20210304-C00078
  • To a mixture of 30 mL (0.21 mol) 1-chloro-4-(prop-1-en-2-yl)benzene in 100 mL chlorobenzene are added 40.7 g (229 mmol) N-bromosuccinimide and 1.71 g (10.4 mmol) 2,2′-azobis(isobutyronitrile) and the mixture is stirred at 132° C. for 20 min. After cooling down the reaction mixture is filtered, the precipitate is washed once with DCM and the solvent is removed in vacuo. The crude product is purified by column chromatography (silica gel; PE/DCM, 9/1) to obtain the two products.
  • Product A
  • C9H8BrCl (M=231.5 g/mol)
  • ESI-MS: 230/232 [M+H]+
  • Rf (TLC) 0.45 (PE/DCM 9/1)
  • Product B
  • C9H8BrCl (M=231.5 g/mol)
  • ESI-MS: 230/232 [M+H]+
  • Rf (TLC) 0.59 (PE/DCM 9/1)
  • The following compounds are prepared according to the general procedure (Intermediate V.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions EI-MS [min]
    V.2.A
    Figure US20210059992A1-20210304-C00079
    Figure US20210059992A1-20210304-C00080
         		130° C. 20 min 196/198 [M + H]+ 1.05 (A)
    V.2.B
    Figure US20210059992A1-20210304-C00081
    Figure US20210059992A1-20210304-C00082
         		130° C. 20 min 196/198 [M + H]+ 1.13 (A)
    V.3.A XIV.2
    Figure US20210059992A1-20210304-C00083
         		130° C. 20 min 230/232 [M + H]+ 1.11 (A)
    V.3.B XIV.2
    Figure US20210059992A1-20210304-C00084
         		130° C. 20 min 230/232 [M + H]+ 1.19 (A)
  • Intermediate VI
  • Intermediate VI.1 (General Route)
    • 2-[(1E)-2-(4-Fluorophenyl)prop-1-en-1-yl]-4,4,5,5-tetramethyl-1,3,2-dioxaborolane
  • Figure US20210059992A1-20210304-C00085
  • A mixture of 10.0 g (46.5 mmol) intermediate IV.1, 17.9 g (69.7 mmol) 4,4,5,5-tetramethyl-2-(4,4,5,5-tetramethyl-1,3,2-dioxaborolan-2-yl)-1,3,2-dioxaborolane and 11.9 g (121 mmol) potassium acetate in 100 mL dioxane is purged with argon. Then 3.80 g (4.65 mmol) [1,1′-bis(diphenylphosphino)ferrocene]dichloropalladium(II) complex with DCM (1:1) are added and the mixture is stirred at 90° C. for 1 h. After cooling down to RT the reaction mixture is diluted with EtOAc and washed with a mixture of sat. aq. NaHCO3 solution and water (1:1), the organic layer is dried over Na2SO4, filtered and the solvent is removed in vacuo. The crude product is purified by column chromatography (silica gel; CyH/EtOAc) to obtain the product.
  • C15H20BFO2 (M=262.1 g/mol)
  • ESI-MS: 263 [M+H]+
  • Rt (HPLC): 1.24 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate VI.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions ESI-MS [min]
    VI.2 V.2.B
    Figure US20210059992A1-20210304-C00086
         		100° C. 1.5 h 245 [M + H]+ 1.20 (A)
    VI.3 IV.2.
    Figure US20210059992A1-20210304-C00087
         		90° C. 2 h 263 [M + H]+ 1.25 (A)
    VI.4 V.3.A
    Figure US20210059992A1-20210304-C00088
         		120° C. 20 min 279 [M + H]+ 1.21 (A)
    VI.5 V.1.B
    Figure US20210059992A1-20210304-C00089
         		120° C. 1 h 279/81 [M + H]+ 1.26 (A)
  • Intermediate VII
  • Intermediate VII.1 (General Route)
    • Methyl 6-amino-5-[(1E)-2-(4-fluorophenyl)prop-1-en-1-yl]pyridine-3-carboxylate
  • Figure US20210059992A1-20210304-C00090
  • To 0.60 g (2.61 mmol) methyl 6-amino-5-bromopyridine-3-carboxylate in 5.23 mL (10.5 mmol; 2 mol/L) Na2CO3 solution and 10 mL dioxane are added 0.69 g (2.61 mmol) intermediate VI.1 and the resulting mixture is purged with argon. Then 302 mg (0.26 mmol) tetrakis(triphenylphosphine)-palladium(0) are added and the reaction mixture is stirred at 120° C. for 40 min. After cooling down to RT the reaction mixture is diluted with EtOAc and washed with a mixture of sat. aq. NaHCO3 solution and water (1:1), the organic layer is dried over Na2SO4, filtered and the solvent is removed in vacuo. The remaining crude product is purified by column chromatography (silica gel; CyH/EtOAc 1/1) to obtain the product.
  • C16H15FN2O2 (M=286.3 g/mol)
  • ESI-MS: 287 [M+H]+
  • Rt (HPLC): 0.81 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate VII.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions ESI-MS [min]
    VII.2 VI.2
    Figure US20210059992A1-20210304-C00091
         		120° C. 30 min 296 [M + H]+ 0.81 (A)
    VII.3 VI.3
    Figure US20210059992A1-20210304-C00092
         		120° C. 30 min 287 [M + H]+ 0.82 (A)
    VII.4 VI.4
    Figure US20210059992A1-20210304-C00093
         		120° C. 40 min 303/05 [M + H]+ 0.83 (A)
    VII.5 VI.5
    Figure US20210059992A1-20210304-C00094
         		120° C. 60 min 303 [M + H]+ 0.86 (A)
  • Intermediate VIII
  • Intermediate VIII.1 (General Route)
    • Methyl 2-(4-fluorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carboxylate
  • Figure US20210059992A1-20210304-C00095
  • A mixture of 4.50 g (14.15 mmol) intermediate VII.1 and 30 mL (428 mmol) conc. H2SO4 is stirred at RT for 80min. The mixture is poured into ice water, slightly basified with NaOH (6 mol/L) and extracted with DCM. The combined organic layers are dried over Na2SO4 and the solvent is removed in vacuo. The remaining solid is triturated with diethylether.
  • C16H15ClN2O2 (M=286.3 g/mol)
  • ESI-MS: 287 [M+H]+
  • Rt (HPLC): 0.77 min (method I)
  • The following compounds are prepared according to the general procedure (Intermediate VIII.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions ESI-MS [min]
    VIII.2 VII.2
    Figure US20210059992A1-20210304-C00096
         		RT 10 min 269 [M + H]+ 0.76 (A)
    VIII.3 VII.3
    Figure US20210059992A1-20210304-C00097
         		RT 20 min Purification by silica gel, CyH/EtOAc 287 [M + H]+ 0.77 (A)
    VIII.4 VII.4
    Figure US20210059992A1-20210304-C00098
         		RT 20 min 303 [M + H]+ 0.82 (A)
    VIII.5 VII.5
    Figure US20210059992A1-20210304-C00099
         		RT 10 min 303 [M + H]+ 0.76 (A)
  • Intermediate IX
  • Intermediate IX.1 (General Route)
    • Methyl (2R)-2-(4-fluorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carboxylate and Methyl (2S)-2-(4-fluorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carboxylate
  • Figure US20210059992A1-20210304-C00100
  • 350 mg (1.21 mmol) intermediate VIII.1 are separated by chiral SFC (method E-for preparative scale).
  • Product IX.1.A (First Eluting):
  • C16H15FN2O2 (M=286.3 g/mol)
  • ESI-MS: 287 [M+H]+
  • Rt (HPLC): 2.57 min (method E)
  • Product IX.1.B (Second Eluting):
  • C16H15FN2O2 (M=286.3 g/mol)
  • Rt (HPLC): 3.88 min (method E)
  • The following compounds are prepared according to the general procedure (Intermediate IX.1) described above:
  • HPLC
    retention
    time
    (method)
    In. Starting material Structure [min]
    IX.2.A VIII.5
    Figure US20210059992A1-20210304-C00101
         		2.72 (F)
    IX.2.B VIII.5
    Figure US20210059992A1-20210304-C00102
         		4.50 (F)
    IX.3.A VIII.4
    Figure US20210059992A1-20210304-C00103
         		2.13 (D)
    IX.3.B VIII.4
    Figure US20210059992A1-20210304-C00104
         		9.82 (D)
    IX.4.A VIII.3
    Figure US20210059992A1-20210304-C00105
         		3.16 (C)
    IX.4.B VIII.3
    Figure US20210059992A1-20210304-C00106
         		3.36 (C)
  • Intermediate X
  • Intermediate X.1.A (General Route)
    • (2R)-2-(4-Fluorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carboxylic acid hydrochloride
  • Figure US20210059992A1-20210304-C00107
  • 980 mg (3.42 mmol) intermediate IX.1.A in 15 mL HCl (6 mol/L) are stirred at 90° C. for 3 h. The reaction mixture is concentrated in vacuo, 20 mL iso-propanol are added and again concentrated in vacuo. The remaining product is triturated with DIPE.
  • C15H13FN2O2*HCl (M=308.7 g/mol)
  • ESI-MS: 273 [M+H]+
  • Rt (HPLC): 6.87 min (method G)
  • The following compounds are prepared according to the general procedure (Intermediate X.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions ESI-MS [min]
    X.1.B IX.1.B
    Figure US20210059992A1-20210304-C00108
         		90° C. 3 h 273 [M + H]+ 3.35 (G)
    X.2 VIII.2
    Figure US20210059992A1-20210304-C00109
         		80° C. 1.5 h 255 [M + H]+ 0.68 (A)
    X.3.A IX.4.A
    Figure US20210059992A1-20210304-C00110
         		90° C. 1 h 273 [M + H]+ 0.69 (A)
    X.3.B IX.4.B
    Figure US20210059992A1-20210304-C00111
         		90° C. 1 h 273 [M + H]+ 0.69 (A)
    X.4.A IX.2.A
    Figure US20210059992A1-20210304-C00112
         		90° C. 1 h 289/91 [M + H]+ 0.75 (A)
    X.5.A IX.3.A
    Figure US20210059992A1-20210304-C00113
         		90° C. 1 h 289/91 [M + H]+ 0.74 (A)
    X.5.B IX.3.B
    Figure US20210059992A1-20210304-C00114
         		90° C. 1 h 289/91 [M + H]+ 0.75 (A)
    X.6 VIII.5
    Figure US20210059992A1-20210304-C00115
         		80° C. 2 h Purification via HPLC (ACN/H2O/TFA) 289/91 [M + H]+ 0.76 (A)
  • Intermediate XI
  • Intermediate XI.1 (General Route)
    • N-[(3S)-1-[2-(4-Chlorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]pyrrolidin-3-yl]-N-methylacetamide
  • Figure US20210059992A1-20210304-C00116
  • To a mixture of 48 mg (0.19 mmol) intermediate X.2 and 43.8 mg (0.25 mmol) intermediate XVI in 2 mL DMF and 161 μL (0.94 mmol) DIPEA are added 108 mg (0.28 mmol) HATU and the reaction mixture is stirred for 20 min at RT. The reaction mixture is purified by HPLC (ACN/H2O/NH4OH).
  • C22H26N4O2 (M=378.5 g/mol)
  • ESI-MS: 379 [M+H]+
  • Rt (HPLC): 0.82 min (method B)
  • The following compounds are prepared according to the general procedure (Intermediate XI.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions ESI-MS [min]
    XI.2 XXI.3 XXIII
    Figure US20210059992A1-20210304-C00117
         		RT 10 min 435 [M + H]+ 0.77 (B)
    XI.3 XXI.3 XXV
    Figure US20210059992A1-20210304-C00118
         		RT 10 min 421 [M + H]+ 0.73 (B)
  • Intermediate XII
  • Intermediate XII.1 (General Route)
    • (3S)-[1-{2,2-Dimethyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl}-N-methylpyrrolidin-3-amine; trifluoroacetic acid
  • Figure US20210059992A1-20210304-C00119
  • To a mixture of 350 mg (1.53 mmol) intermediate III.1 and 540 mg (2.30 mmol) intermediate XVI in 6 mL DMF and 920 μL (5.36 mmol) DIPEA are added 870 mg (2.30 mmol) HATU and the reaction mixture is stirred a few minutes. The mixture is purified by HPLC (ACN/H2O/NH4OH).
  • C20H30N4O3 (M=374.4 g/mol)
  • ESI-MS: 375 [M+H]+
  • Rt (HPLC): 0.92 min (method B)
  • The above mentioned intermediate is dissolved in 5 mL DCM, 1 mL TFA is added and the mixture is stirred at RT for 2 h. Afterwards all volatiles are removed in vacuo.
  • C15H22N4O*C2HF3O2 (M=388.4 g/mol)
  • ESI-MS: 275 [M+H]+
  • Rt (HPLC): 0.72 min (method B)
  • The following compounds are prepared according to the general procedure (Intermediate XII.1) described above:
  • HPLC
    retention
    time
    (method)
    In. Starting material Structure ESI-MS [min]
    XII.2 III.2
    Figure US20210059992A1-20210304-C00120
    Figure US20210059992A1-20210304-C00121
         		289 [M + H]+ 0.75 (B)
  • Intermediate XIII
  • Intermediate XIII.1 (General Route)
    • 3-[(3S)-Pyrrolidin-3-yl]-1,3-oxazolidin-2-one hydrochloride
  • Figure US20210059992A1-20210304-C00122
  • A mixture of 2.00 g (10.7 mmol) tert-butyl (3S)-3-aminopyrrolidine-1-carboxylate in 0.5 mL DCM and 4 mL aq. NaOH (50%) is cooled to 0° C. A mixture of 1.38 g (9.66 mmol) 2-chloroethyl carbonochloridate in 0.5 mL DCM is added dropwise and the reaction mixture is stirred at 0° for 1 h. 3.48 g (5.37 mmol) tetrabutylammonium hydroxide (40% in MeOH) is added and the mixture is stirred overnight at RT. The mixture is quenched with H2O and extracted with DCM. The combined organic layers are dried over a phase separator cartridge and the solvent is removed on vacuo.
  • The crude product is purified by column chromatography (silica gel; CyH/EtOAc) and the solvents are removed in vacuo.
  • C12H20N2O4 (M=256.3 g/mol)
  • ESI-MS: 201 [M-tBU+H]+
  • Rt (HPLC): 0.82 min (method B)
  • The above mentioned product is added to 2.5 mL dioxane , 5 mL (20.0 mmol) HCl in dioxane (4 mol/L) and some MeOH and the mixture is stirred overnight at RT. The solvent is removed in vacuo to obtain the product.
  • C7H12N2O2*HCl (M=192.6 g/mol)
  • ESI-MS: 157 [M+H]+
  • Rt (HPLC): 0.17 min (method B)
  • The following compounds are prepared according to the general procedure (Intermediate XIII.1) described above:
  • HPLC
    retention
    time
    (method)
    In. Starting material Structure ESI-MS [min]
    XIII.2 tcrt-butyl (3S)- 3-amino- pyrrolidine-1- carboxylate
    Figure US20210059992A1-20210304-C00123
    Figure US20210059992A1-20210304-C00124
         		155 [M + H]+ 0.27 (B)
  • Intermediate XIV
  • Intermediate XIV.1 (General Route)
    • 1-Fluoro-3-(prop-1-en-2-yl)benzene
  • Figure US20210059992A1-20210304-C00125
  • A mixture of 16.1 g (39.8 mmol) iodo(methyl)triphenyl-phosphane in 130 mL THF is cooled with an icebath. Then 4.47 g (39.8 mmol) potassium 2-methylpropan-2-olate are added during ice cooling and the reaction mixture is stirred for lh. After that a solution of 5.00 g (36.2 mmol) 1-(3-fluorophenyl)ethan-1-one in 20 mL THF is added during ice cooling and the mixture is stirred at RT for 1 h.
  • The mixture is quenched with sat.aq. NH4Cl solution and the layers are separated. The organic layer is dried and the solvent is removed in vacuo.
  • 50 mL PE are added and the mixture is stirred. The obtained oil is separated and the PE layer is dried over Na2SO4, filtered and the solvent is removed in vacuo to obtain the product.
  • C9H9F (M=136.2 g/mol)
  • EI-MS: 136 [M*]+
  • Rt (HPLC): 1.09 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate XIV.1) described above:
  • HPLC
    retention
    time
    (method)
    In. Starting material Structure Reaction conditions EI-MS [min]
    XIV.2
    Figure US20210059992A1-20210304-C00126
    Figure US20210059992A1-20210304-C00127
         		0° C., 1 h RT, 1 h 152 [M*]+ 1.14 (A)
  • Intermediate XV
    • N-Methyl-N-[(3S)-pyrrolidin-3-yl]pyrimidin-2-amine hydrochloride
  • Figure US20210059992A1-20210304-C00128
  • A mixture of 1.00 g (6.29 mmol) 2-bromopyrimidine, 1.51 g (7.55 mmol) tert-butyl (3S)-3-(methylamino)pyrrolidine-1-carboxylate, 3.81 mL (22.0 mmol) DIPEA and 10 mL DMF is stirred at 120° C. for 2 h. The solvent is removed in vacuo and the crude product A is purified by column chromatography (silica gel; DCM/MeOH)
  • C14H22N4O2 (M=278.3 g/mol)
  • ESI-MS: 279 [M+H]+
  • Rt (HPLC): 0.87 min (method A)
  • To the above mentioned product are added 10 mL MeOH and 4 mL HCl in dioxane (4 mol/L) and the mixture is stirred overnight at RT. The solvents are removed in vacuo to obtain the final product.
  • C9H14N4*HCl (M=214.7 g/mol)
  • ESI-MS: 179 [M+H]+
  • Rt (HPLC): 0.15 min (method A)
  • Intermediate XVI
    • N-Methyl-N-[(3S)-pyrrolidin-3-yl]acetamide hydrochloride
  • Figure US20210059992A1-20210304-C00129
  • A mixture of 2.5 g (11.0 mmol) tert-butyl (3S)-3-acetamidopyrrolidine-1-carboxylate and 1 mL (15.9 mmol) iodomethane in 25 mL THF is cooled to −10° C. Then 0.75 g (18.8 mmol) NaH (60%) are added and the mixture is stirred overnight at RT. The reaction mixture is quenched with H2O and EtOAc and stirred vigorously for 5 min. The layers are separated and the H2O layer is extracted with EtOAc. The combined organic layers are dried over a phase separator cartridge and concentrated in vacuo. The residue is treated with 10 mL HCl in dioxane and stirred at RT. The obtained precipitate is filtered off, washed with dioxane and dried in vacuo to obtain the product.
  • C7H14N2O*HCl (M=178.7 g/mol)
  • ESI-MS: 143 [M+H]+
  • Rt (HPLC): 0.29 min (method B)
  • Intermediate XVII
  • Intermediate XVII.1 (General Route)
    • Methyl 6-amino-5-(4-hydroxy-4-methylpent-1-yn-1-yl)pyridine-3-carboxylate
  • Figure US20210059992A1-20210304-C00130
  • To 0.40 g (1.73 mmol) methyl 6-amino-5-bromopyridine-3-carboxylate and 0.22 g (2.25 mmol) 2-methylpent-4-yn-2-ol in 8 mL ACN are added 0.84 mL (6.06 mmol) TEA, 33.0 mg (0.17 mmol) Cu(I)I and 0.20 g (0.17 mmol) tetrakis(triphenylphosphine)-palladium(0) and the reaction mixture is stirred at 80° C. for 1 h. After cooling down to RT the reaction mixture is diluted with EtOAc and washed with a mixture of sat. aq. NH4Cl solution and ammonia (9:1), the organic layer is dried over a phase separator cartridge and the solvent is removed in vacuo. The remaining crude product is purified by column chromatography (silica gel; CyH/EtOAc 9/1) to obtain the product.
  • C13H16N2O3 (M=248.2 g/mol)
  • ESI-MS: 249 [M+H]+
  • Rt (HPLC): 0.67 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate XVII.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions ESI-MS [min]
    XVII.2
    Figure US20210059992A1-20210304-C00131
    Figure US20210059992A1-20210304-C00132
         		80° C. 1.5 h Purified by HPLC (ACN/H2O/ NH4OH) 283 [M + H]+ 0.87 (B)
    XVII.3
    Figure US20210059992A1-20210304-C00133
    Figure US20210059992A1-20210304-C00134
         		80° C. 1.5 h Purified by HPLC (ACN/H2O/ NH4OH) 297 [M + H]+ 0.92 (B)
    XVII.4
    Figure US20210059992A1-20210304-C00135
    Figure US20210059992A1-20210304-C00136
         		80° C. 35 h 299 [M + H]+ 0.68 (A)
  • Intermediate XVIII
  • Intermediate XVIII.1 (General Route)
    • Methyl 6-amino-5-(4-hydroxy-4-methylpentyl)pyridine-3-carboxylate
  • Figure US20210059992A1-20210304-C00137
  • A mixture of 0.40 g (1.61 mmol) of Intermediate XVII.1, 40.0 mg Pd/C (10%) and 10 mL MeOH is hydrogenated at RT and 3 bar of H2 for 1 h. The mixture is filtered and the solvent is removed in vacuo to obtain the product.
  • C13H20N2O3 (M=252.3 g/mol)
  • ESI-MS: 253 [M+H]+
  • Rt (HPLC): 0.63 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate XVIII.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    In. Starting material Structure conditions ESI-MS [min]
    XVIII.2 XVII.2
    Figure US20210059992A1-20210304-C00138
         		Purified by HPLC (ACN/H2O/ NH4OH) 287 [M + H]+ 0.85 (B)
    XVIII.3 XVII.3
    Figure US20210059992A1-20210304-C00139
         		Purified by HPLC (ACN/H2O/ NH4OH) 301 [M + H]+ 0.88 (B)
    XVIII.4 XVII.4
    Figure US20210059992A1-20210304-C00140
         		Pd(II)OH, EtOH RT, overnight 303 [M + H]+ 0.58 (A)
  • Intermediate XIX
    • Methyl 7-ethyl-7-methyl-5,6,7,8-tetrahydro-1,8-naphthyridine-3-carboxylate
  • Figure US20210059992A1-20210304-C00141
  • A mixture of 500 mg (1.98 mmol) Intermediate XVIII.1 and 5 mL conc. H2SO4 is stirred at RT. The reaction mixture is poured onto ice and carefully basified using aq. NaOH (conc.: 4 mol/L). The aqueous phase is extracted twice with DCM. The org. layers are combined, dried over Na2SO4, filtered and the solvent is removed in vacuo. The crude product is purified by HPLC (ACN/H2O/TFA).
  • C13H18N2O2 (M=234.2 g/mol)
  • ESI-MS: 235 [M+H]+
  • Rt (HPLC): 0.71 min (method A)
  • Intermediate XX
    • Methyl 6-amino-5-(3-chloro-3-phenylpropyl)pyridine-3-carboxylate
  • Figure US20210059992A1-20210304-C00142
  • To a solution of 0.12 g (0.43 mmol) XVIII.2 in 1 mL trichloromethane are added 93.7 μL (1.29 mmol) thionylchloride and the mixture is stirred at 60° C. overnight. The solvent is removed in vacuo to obtain the crude product.
  • C16H17ClN2O2 (M=304.7 g/mol)
  • ESI-MS: 305/307 [M+H]+
  • Rt (HPLC): 0.81 min (method A)
  • Intermediate XXI
  • Intermediate XXI.1 (General Route)
    • 7-Phenyl-5,6,7,8-tetrahydro-1,8-naphthyridine-3-carboxylic acid
  • Figure US20210059992A1-20210304-C00143
  • A mixture of 0.13 g (0.43 mmol) intermediate XX in 1 mL HCl (6 mol/L) is stirred at 100° C. for 1.5 h. The solvent is removed in vacuo to obtain the crude product.
  • C15H14N2O2 (M=254.2 g/mol)
  • ESI-MS: 255 [M+H]+
  • Rt (HPLC): 0.70 min (method A)
  • The following compounds are prepared according to the general procedure (Intermediate XXI.1) described above:
  • HPLC
    retention
    time
    Reaction [min]
    In. Starting material Structure conditions ESI-MS (method)
    XXI.2 XXII.1
    Figure US20210059992A1-20210304-C00144
         		100° C. 1.5 h 269 [M + H]+ 0.74 (A)
    XXI.3 XVIII.4
    Figure US20210059992A1-20210304-C00145
         		120° C. 1.5 h 271 [M + H]+ 0.48 (A)
    XXI.4 XVIII.1
    Figure US20210059992A1-20210304-C00146
         		100° C. 16 h Purification via HPLC 221 [M + H]+ 0.66 (H)
  • Intermediate XXII
    • Methyl 7-methyl-7-phenyl-5,6,7,8-tetrahydro-1,8-naphthyridine-3-carboxylate
  • Figure US20210059992A1-20210304-C00147
  • To a solution of 0.10 g (0.33 mmol) example XVIII.3 in 1 mL trichloromethane are added 72.6 μL (1.00 mmol) thionylchloride and the mixture is stirred at 60° C. overnight. Additional 73 μL (1.00 mmol) thionylchloride are added and the mixture is stirred at 60° C. for 3 h. The solvent is removed in vacuo and the crude product is purified by HPLC (ACN/H2O/TFA).
  • C17H18N2O2 (M=282.3 g/mol)
  • ESI-MS: 283 [M+H]+
  • Rt (HPLC): 0.82 min (method A)
  • Intermediate XXIII
    • N-Methyl-N-[(3S)-pyrrolidin-3-yl]cyclobutanecarboxamide
  • Figure US20210059992A1-20210304-C00148
  • To a mixture of 1.00 g (4.22 mmol) tert-butyl (3S)-3-(methylamino)pyrrolidine-1-carboxylate hydrochloride and 2.94 mL (21.1 mmol) TEA in 25 mL DCM are added dropwise under ice cooling 0.53 mL (4.65 mmol) cyclobutanecarbonyl chloride and the mixture is stirred at 0° C. for 10 min. Then the solids are filtered off and the filtrate is washed 1× with sat. NH4Cl solution, 1× with sat. NaHCO3 solution and 1× with sat. NaCl solution. The organic layer is dried over Na2SO4 and the solvent is removed in vacuo.
  • Then the residue is added to 3 mL MeOH before 3 mL (12.0 mmol) HCl in dioxane (4 mol/L) are added. The mixture is stirred overnight at RT. The solvent is removed in vacuo to obtain the crude product.
  • C10H18N2O*HCl (M=218.7 g/mol)
  • ESI-MS: 183 [M+H]+
  • Rt (HPLC): 0.67 min (method B)
  • Intermediate XXIV
    • tert-Butyl (3S)-3-(N-methylcyclopropaneamido)pyrrolidine-1-carboxylate
  • Figure US20210059992A1-20210304-C00149
  • A mixture of 0.38 mL (4.77 mmol) cyclopropanecarboxylic acid, 1.00 g (4.99 mmol) tert-butyl (3S)-3-(methylamino)pyrrolidine-1-carboxylate, 1.69 g (5.25 mmol) TBTU and 2.06 mL (11.9 mmol) DIPEA in 10 mL DMF is stirred overnight at RT. The solvent is removed in vacuo. The residue is diluted with 20 mL sat. NaHCO3 solution and extracted with EtOAc. The combined organic layers are dried over MgSO4, filtered and the solvent is removed in vacuo to obtain the product.
  • C14H24N2O3 (M=268.3 g/mol)
  • ESI-MS: 269 [M+H]+
  • Rt (HPLC): 0.51 min (method A)
  • Intermediate XXV
    • N-Methyl-N-[(3S)-pyrrolidin-3-yl]cyclopropanecarboxamide hydrochloride
  • Figure US20210059992A1-20210304-C00150
  • A mixture of 1.27 g intermediate XXIV, 10 mL (40.0 mmol) HCl in dioxane (4 mol/L) and 10 mL dioxane is stirred overnight at RT. The solvent is removed in vacuo to obtain the product.
  • C9H16N2O*HCl (M=204.7 g/mol)
  • ESI-MS: 169 [M+H]+
  • Rt (HPLC): 0.58 min (method B)
  • Intermediate XXVI
    • Methyl 5H,6H,7H,8H,9H-pyrido[2,3-b]azepine-3-carboxylate
  • Figure US20210059992A1-20210304-C00151
  • To 2 mL methanol and 2 mL DMF are given 0.20 g (0.88 mmol) 3-bromo-5H,6H,7H,8H,9H-pyrido[2,3-b]azepine, 0.02 g (44.0 μmol) 1,1′-Bis-(diphenylphosphino)-ferrocene, 0.01 g (44.0 μmol) Pd(OAc)2 and 0.25 mL TEA (1.76 mmol). After degassing the reaction mixture is purged with CO (5 bar) and strirred at 80° C. for 18 h. After cooling down to RT the mixture is filtered and the solvent is removed in vacuo. The crude product is purified by HPLC (ACN/H2O/NH3).
  • C11H14N2O2 (M=206.2 g/mol)
  • ESI-MS: 207 [M+H]+
  • Rt (HPLC): 0.85 min (method B)
  • Preparation of Final Compounds
    • EXAMPLE 1 EXAMPLE 1.1 General Route N-[(3S)-1-{2,2-Dimethyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl}pyrrolidin-3-yl]-N-methylacetamide
  • Figure US20210059992A1-20210304-C00152
  • To a mixture of 33.0 mg (0.14 mmol) intermediate III.1 and 38.7 mg (0.22 mmol) intermediate XVI in 1 mL DMF are added 74.0 μL (0.43 mmol) DIPEA and 82.3 mg (0.22 mmol) HATU and the reaction mixture is stirred a few minutes. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C17H24N4O2 (M=316.4 g/mol)
  • ESI-MS: 317 [M+H]+
  • Rt (HPLC): 0.71 min (method B)
  • The following compounds are prepared according to the general procedure (example 1.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    Ex. Starting materials Structure conditions ESI-MS [min]
    1.2 III.1 XIII.2
    Figure US20210059992A1-20210304-C00153
         		RT 5 min 329 [M + H]+ 0.72 (B)
    1.3 III.1 XIII.1
    Figure US20210059992A1-20210304-C00154
         		RT 5 min 331 [M + H]+ 0.70 (B)
    1.4 III.1
    Figure US20210059992A1-20210304-C00155
    Figure US20210059992A1-20210304-C00156
         		RT 10 min 316 [M + H]+ 0.78 (B)
    1.5 III.1
    Figure US20210059992A1-20210304-C00157
    Figure US20210059992A1-20210304-C00158
         		RT 10 min 302 [M + H]+ 0.74 (B)
    • EXAMPLE 2 EXAMPLE 2.1 General Route N-[(3S)-1-{2,2-Dimethyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl}pyrrolidin-3-yl]-N-methylcyclobutanecarboxamide
  • Figure US20210059992A1-20210304-C00159
  • To a mixture of 50.0 mg (0.13 mmol) intermediate XII.1 and 19.3 mg (0.19 mmol) cyclobutanecarboxylic acid in 1 mL (119 mmol) DMF and 77.0 μL (0.45 mmol) DIPEA are added 73.4 mg (0.19 mmol) HATU and the reaction mixture is stirred at RT for 30 min. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C17H24N4O2 (M=356.5 g/mol)
  • ESI-MS: 357 [M+H]+
  • Rt (HPLC): 0.89 min (method B)
  • The following compounds are prepared according to the general procedure (example 2.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    Ex. Starting materials Structure conditions ESI-MS [min]
    2.2 XII.1
    Figure US20210059992A1-20210304-C00160
    Figure US20210059992A1-20210304-C00161
         		RT 30 min 368 [M + H]+ 0.76 (B)
    2.3 XII.1
    Figure US20210059992A1-20210304-C00162
    Figure US20210059992A1-20210304-C00163
         		RT 30 min 371 [M + H]+ 0.91 (B)
    2.4 XII.1
    Figure US20210059992A1-20210304-C00164
    Figure US20210059992A1-20210304-C00165
         		RT 30 min 393 [M + H]+ 0.81 (B)
    2.5 XII.1
    Figure US20210059992A1-20210304-C00166
    Figure US20210059992A1-20210304-C00167
         		RT 30 min 343 [M + H]+ 0.90 (B)
    • EXAMPLE 3 N-[(3S)-1-{2,2-Dimethyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl}pyrrolidin-3-yl]-N-methylpyrimidin-2-amine
  • Figure US20210059992A1-20210304-C00168
  • A mixture of 50.0 mg (0.13 mmol) intermediate XII.1 and 22.5 mg (0.14 mmol) 2-bromo-pyrimidine in 111 μL (0.64 mmol) DIPEA and 1.5 mL (18.4 mmol) DMF are stirred overnight at 120° C. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C17H24N4O2 (M=352.4 g/mol)
  • ESI-MS: 353 [M+H]+
  • Rt (HPLC): 0.83 min (method B)
    • EXAMPLE 4 EXAMPLE 4.1 General Route 3-[(3S)-1-[(2R)-2-(3-Fluorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]pyrrolidin-3-yl]-1,3-oxazolidin-2-one
  • Figure US20210059992A1-20210304-C00169
  • To a mixture of 45.0 mg (0.15 mmol) intermediate X.3.A and 33.7 mg (0.18 mmol) intermediate XIII.1 in 2 mL (30.6 mmol) DMF and 149 μL (0.87 mmol) DIPEA are added 83.1 mg (0.22 mmol) HATU and the reaction mixture is stirred a few minutes. The mixture is purified by HPLC
  • (ACN/H2O/NH4OH) to obtain the product.
  • C22H23FN4O3 (M=410.4 g/mol)
  • ESI-MS: 411 [M+H]+
  • Rt (HPLC): 0.70 min (method A)
  • The following compounds are prepared according to the general procedure (example 4.1) described above:
  • HPLC
    retention
    time
    (method)
    Ex. Starting materials Structure Reaction conditions ESI-MS [min]
    4.2 X.3.B XVI
    Figure US20210059992A1-20210304-C00170
         		RT 5 min 397 [M + H]+ 0.35 (B)
    4.3 X.3.A XVI
    Figure US20210059992A1-20210304-C00171
         		RT 5 min 397 [M + H]+ 0.70 (A)
    4.4 X.3.A XIII.2
    Figure US20210059992A1-20210304-C00172
         		RT 5 min 409 [M + H]+ 0.83 (B)
    • EXAMPLE 5 EXAMPLE 5.1 General Route 2-[(2R)-2-(4-Fluorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]-8-oxa-2-azaspiro[4.5]decane
  • Figure US20210059992A1-20210304-C00173
  • To a mixture of 40.0 mg (0.13 mmol) intermediate X.1.A and 27.6 mg (0.16 mmol) 8-oxa-2-azaspiro[4.5]decane hydrochloride in 1.5 mL (22.9 mmol) DMF and 66.4 μL (0.39 mmol) DIPEA are added 73.9 mg (0.19 mmol) HATU and the reaction mixture is stirred 2 min. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C23H26FN3O2 (M=395.4 g/mol)
  • ESI-MS: 396 [M+H]+
  • Rt (HPLC): 0.89 min (method B)
  • The following compounds are prepared according to the general procedure (example 5.1) described above:
  • HPLC
    retention
    time
    Starting Reaction ESI- (method)
    Ex. materials Structure conditions MS [min]
    5.2 X.1.A XIII.1
    Figure US20210059992A1-20210304-C00174
         		RT 5 min 411 [M + H]+ 0.83 (B)
    5.3 X.1.A XIII.2
    Figure US20210059992A1-20210304-C00175
         		RT 5 min 409 [M + H]+ 0.83 (B)
    5.4 X.1.B XVI
    Figure US20210059992A1-20210304-C00176
         		RT 5 min 397 [M + H]+ 3.66 (K)
    5.5 X.1.A XV
    Figure US20210059992A1-20210304-C00177
         		RT 2 min 433 [M + H]+ 0.94 (B)
    5.6 X.1.A
    Figure US20210059992A1-20210304-C00178
    Figure US20210059992A1-20210304-C00179
         		RT 2 min 382 [M + H]+ 0.87 (B)
    • EXAMPLE 6 N-[(3S)-1-[(2R)-2-(4-Fluorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]-pyrrolidin-3-yl]-N-methylacetamide
  • Figure US20210059992A1-20210304-C00180
  • To a mixture of 1.65 g (5.34 mmol) intermediate X.1.A and 1.15 g (6.41 mmol) intermediate XVI in 3.65 mL (21.4 mmol) DIPEA and 20 mL DMF are added 1.80 g (5.61 mmol) TBTU and the reaction mixture is stirred at RT for 10 min. The reaction is diluted with aq. NaHCO3 solution and extracted with EtOAc. The combined organic layers are dried and the solvent is removed in vacuo. The crude product is purified by column chromatography (silica gel; EtOAc/MeOH 4/1) and the solvents are removed in vacuo. The residue is triturated with DIPE, the solid is filtered off, washed with DIPE and dried at 50° C. in vacuo to obtain the product.
  • C22H25FN4O2 (M=396.5 g/mol)
  • ESI-MS: 397 [M+H]+
  • Rt (HPLC): 3.19 min (method K)
    • EXAMPLE 7 EXAMPLE 7.1 General Route (3′S)-1′-[2-(3-Chlorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]-[1,3′-bipyrrolidine]-2-one
  • Figure US20210059992A1-20210304-C00181
  • To a mixture of 35.0 mg (0.11 mmol) intermediate X.5.A and 22.6 mg (0.12 mmol) intermediate XIII.2 in 2 mL (30.6 mmol) DMF and 110 μL (0.65 mmol) DIPEA are added 61.4 mg (0.16 mmol) HATU and the reaction mixture is stirred a few minutes. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C23H25ClN4O2 (M=424.9 g/mol)
  • ESI-MS: 425 [M+H]+
  • Rt (HPLC): 0.74 min (method A)
  • The following compounds are prepared according to the general procedure (example 7.1) described above:
  • HPLC
    retention
    time
    Reaction (method)
    Ex. Starting materials Structure conditions ESI-MS [min]
    7.2 X.5.A XVI
    Figure US20210059992A1-20210304-C00182
         		RT 5 min 413 [M + H]+ 0.73 (B)
    7.3 X.5.B XVI
    Figure US20210059992A1-20210304-C00183
         		RT 5 min 413 [M + H]+ 0.74 (A)
    7.4 X.5.A XIII.1
    Figure US20210059992A1-20210304-C00184
         		RT 5 min 427 [M + H]+ 0.74 (A)
    • EXAMPLE 8 EXAMPLE 8.1 General Route N-[(3S)-1-[2-(4-Chlorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]pyrrolidin-3-yl]-N-methylacetamide
  • Figure US20210059992A1-20210304-C00185
  • To a mixture of 100 mg (0.31 mmol) intermediate X.6 and 65.6 mg (0.46 mmol) N-methyl-N-[(3S)-pyrrolidin-3-yl]acetamide in 3 mL (45.9 mmol) DMF and 315 μL (1.85 mmol) DIPEA are added 175 mg (0.46 mmol) HATU and the reaction mixture is stirred 20 min. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C22H25ClN4O2 (M=412.9 g/mol)
  • ESI-MS: 413 [M+H]+
  • Rt (HPLC): 0.87 min (method B)
  • The following compounds are prepared according to the general procedure (example 8.1) described above:
  • HPLC
    retention
    time
    Reaction ESI- (method)
    Ex. Starting materials Structure conditions MS [min]
    8.2 X.4.A XIII.1
    Figure US20210059992A1-20210304-C00186
         		RT 1 h 427 [M + H]+ 0.88 (B)
    8.3 X.4.A XIII.2
    Figure US20210059992A1-20210304-C00187
         		RT 1 h 425 [M + H]+ 0.87 (B)
    • EXAMPLE 9 EXAMPLE 9.1 AND 9.2 General Route N-[(3S)-1-[(2R)-2-(4-Chlorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]pyrrolidin-3-yl]-N-methylacetamide and N-[(3S)-1-[(2S)-2-(4-Chlorophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]pyrrolidin-3-yl]-N-methylacetamide
  • Figure US20210059992A1-20210304-C00188
  • 160 mg (0.39 mmol) example 8.1 are separated into its diastereoisomers by chiral SFC (method K).
  • Product 9.1 (First Eluting):
  • C22H25ClN4O2 (M=412.9 g/mol)
  • ESI-MS: 413 [M+H]+
  • Rt (HPLC): 4.58 min (method K)
  • Product 9.2 (Second Eluting):
  • C22H25ClN4O2 (M=412.9 g/mol)
  • ESI-MS: 413 [M+H]+
  • Rt (HPLC): 5.08 min (method K)
  • The following compounds are prepared according to the general procedure (example 9.1) described above:
  • HPLC
    retention
    time
    (method)
    Ex. Starting material Structure ESI-MS [min]
    9.3 XI.1
    Figure US20210059992A1-20210304-C00189
         		379 [M + H]+ 3.51 (K)
    9.4 XI.1
    Figure US20210059992A1-20210304-C00190
         		379 [M + H]+ 3.99 (K)
    • EXAMPLE 10 N-[(3S)-1-[(2R)-2-(4-Cyanophenyl)-2-methyl-1H,2H,3H-pyrrolo[2,3-b]pyridine-5-carbonyl]pyrrolidin-3-yl]-N-methylacetamide
  • Figure US20210059992A1-20210304-C00191
  • 56.0 mg (0.14 mmol) example 9.1 and 31.9 mg (0.27 mmol) zinc-dicarbonitrile are dissolved in 2 mL DMF and purged with argon. Then 10.0 mg (0.014 mmol) [2-(2-aminoethyl)phenyl](chloro)palladium; dicyclohexyl[2′,4′,6′-tris(propan-2-yl)-[1,1′-biphenyl[-2-yl]phosphane are added and the reaction mixture is stirred at 130° C. for 20 min. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C23H25N5O2 (M=403.4 g/mol)
  • ESI-MS: 404 [M+H]+
  • Rt (HPLC): 0.78 min (method B)
    • EXAMPLE 11 EXAMPLE 11.1 General Route 2-(7,7-Dimethyl-5,6,7,8-tetrahydro-1,8-naphthyridine-3-carbonyl)-8-oxa-2-azaspiro[4.5]decane
  • Figure US20210059992A1-20210304-C00192
  • To a mixture of 50.0 mg (0.21 mmol) intermediate 111.2 and 43.9 mg (0.25 mmol) 8-oxa-2-azaspiro[4.5]decane hydrochloride in 2 mL (30.6 mmol) DMF and 106 μL (0.62 mmol) DIPEA are added 118 mg (0.31 mmol) HATU and the reaction mixture is stirred 10 minutes. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C19H27N3O2 (M=329.4 g/mol)
  • ESI-MS: 330 [M+H]+
  • Rt (HPLC): 0.85 min (method B)
  • The following compounds are prepared according to the general procedure (example 11.1) described above:
  • HPLC
    retention
    time
    Starting (method)
    Ex. materials Structure ESI-MS [min]
    11.2 III.2
    Figure US20210059992A1-20210304-C00193
    Figure US20210059992A1-20210304-C00194
         		316 [M + H]+ 0.79 (B)
    11.3 III.2 XV
    Figure US20210059992A1-20210304-C00195
         		367 [M + H]+ 0.88 (B)
    11.4 XII.2
    Figure US20210059992A1-20210304-C00196
    Figure US20210059992A1-20210304-C00197
         		385 [M + H]+ 0.92 (B)
    11.5 III.2 XIII.1
    Figure US20210059992A1-20210304-C00198
         		345 [M + H]+ 0.75 (B)
    11.6 III.2 XVI
    Figure US20210059992A1-20210304-C00199
         		331 [M + H]+ 0.76 (B)
    11.7 XII.2
    Figure US20210059992A1-20210304-C00200
    Figure US20210059992A1-20210304-C00201
         		382 [M + H]+ 0.82 (B)
    11.8 III.2 XIII.2
    Figure US20210059992A1-20210304-C00202
         		343 [M + H]+ 0.77 (B)
    11.9 XII.2
    Figure US20210059992A1-20210304-C00203
    Figure US20210059992A1-20210304-C00204
         		357 [M + H]+ 0.82 (B)
    11.10 XII.2
    Figure US20210059992A1-20210304-C00205
    Figure US20210059992A1-20210304-C00206
         		371 [M + H]+ 0.85 (B)
    11.11 XII.2
    Figure US20210059992A1-20210304-C00207
    Figure US20210059992A1-20210304-C00208
         		407 [M + H]+ 0.86 (B)
    11.12† III.3 XVI
    Figure US20210059992A1-20210304-C00209
         		345 [M + H]+ 0.80 (B)
    †Reaction time 60 min at RT
    • EXAMPLE 12 EXAMPLE 12.1 General Route N-Methyl-N-[(3S)-1-(7-phenyl-5,6,7,8-tetrahydro-1,8-naphthyridine-3-carbonyl)pyrrolidin-3-yl]acetamide
  • Figure US20210059992A1-20210304-C00210
  • To a mixture of 48.0 mg (0.17 mmol) intermediate XXI.1 and 35.4 mg (0.20 mmol) intermediate XVI in 1 mL DMF and 0.17 mL (0.99 mmol) DIPEA are added 69.1 mg (0.18 mmol) HATU and the reaction mixture is stirred at RT for 10 minutes. The mixture is purified by HPLC (ACN/H2O/NH4OH) to obtain the product.
  • C22H26N4O2 (M=378.4 g/mol)
  • ESI-MS: 379 [M+H]+
  • Rt (HPLC): 0.85 min (method B)
  • The following compounds are prepared according to the general procedure (example 12.1) described above:
  • HPLC
    retention
    time
    (method)
    Ex. Starting materials Structure ESI-MS [min]
    12.2 XXI.2 XVI
    Figure US20210059992A1-20210304-C00211
         		393 [M + H]+ 0.73 (A)
    12.3 III.4 XVI
    Figure US20210059992A1-20210304-C00212
         		317 [M + H]+ 0.45 (L)
    12.4 XXI.4 XVI
    Figure US20210059992A1-20210304-C00213
         		345 [M + H]+ 0.80 (B)
    12.5 XXI.4 XIII.2
    Figure US20210059992A1-20210304-C00214
         		357 [M + H]+ 0.81 (B)
    12.6 XXI.4 XXV
    Figure US20210059992A1-20210304-C00215
         		371 [M + H]+ 0.87 (B)
    12.7 XXI.4 XIII.1
    Figure US20210059992A1-20210304-C00216
         		359 [M + H]+ 0.80 (B)
    • EXAMPLE 13 EXAMPLE 13.1 AND 13.2 General Route N-methyl-N-[(3S)-1-[(7R)-7-Methyl-7-(pyrimidin-5-yl)-5,6,7,8-tetrahydro-1,8-naphthyridine-3-carbonyl]pyrrolidin-3-yl]cyclobutanecarbox amide and N-methyl-N-[(3S)-1-[(7S)-7-Methyl-7-(pyrimidin-5-yl)-5,6,7,8-tetrahydro-1,8-naphthyridine-3-carbonyl]pyrrolidin-3-yl]cyclobutanecarboxamide
  • Figure US20210059992A1-20210304-C00217
  • 50.0 mg (0.12 mmol) intermediate XI.2 are purified by chiral SFC (method K).
    • EXAMPLE 13.1 First Eluting
  • C24H30N6O2 (M=434.5 g/mol)
  • ESI-MS: 435 [M+H]+
  • Rt (HPLC): 4.52 min (method K)
    • EXAMPLE 13.2 Second Eluting
  • C24H30N6O2 (M=434.5 g/mol)
  • ESI-MS: 435 [M+H]+
  • Rt (HPLC): 5.09 min (method K)
  • The following compounds are prepared according to the general procedure (example 13.1 and 13.2) described above:
  • HPLC
    retention
    time
    (method)
    Ex. Starting material Structure ESI-MS [min]
    13.3 XI.3
    Figure US20210059992A1-20210304-C00218
         		421 [M + H]+ 2.98 (J)
    13.4 XI.3
    Figure US20210059992A1-20210304-C00219
         		421 [M + H]+ 3.76 (J)
  • Analytical HPLC Methods
  • Method A
  • Gradient/ % Sol [Water % Sol Flow
    Solvent 0.1% TFA [Ace- [ml/ Temp
    Time [min] (v/v)] tonitrile] min] [° C.]
    0.0 97.0 3.0 2.2 60.0
    0.2 97.0 3.0 2.2 60.0
    1.2 0.0 100.0 2.2 60.0
    1.25 0.0 100.0 3.0 60.0
    1.4 0.0 100.0 3.0 60.0
  • Column: Sunfire C18_3.0×30 mm_2.5 μm
  • Method B
  • Gradient/ % Sol [Water % Sol Flow
    Solvent 0.1% [Ace- [ml/ Temp
    Time [min] NH3] tonitrile] min] [° C.]
    0.0 97.0 3.0 2.2 60.0
    0.2 97.0 3.0 2.2 60.0
    1.2 0.0 100.0 2.2 60.0
    1.25 0.0 100.0 3.0 60.0
    1.4 0.0 100.0 3.0 60.0
  • Column: XBridge C18_3.0×30 mm_2.5 μm
  • Method C
  • Gradient/ % Sol
    Solvent [MeOH Flow Back
    Time % Sol 20 mM [ml/ Temp pressure
    [min] [scCO2] NH3] min] [° C.] [PSI]
     0.0 90.0 10.0 4.0 40.0 2175.0
    10.0 90.0 10.0 4.0 40.0 2175.0
  • Column: Lux® Cellulose-4_4.6×250 mm_5 μm
  • For preparative scale: Lux® Cellulose-4_21.2×250 mm_5 μm; Flow 60 mL/min
  • Method D
  • Gradient/ % Sol
    Solvent [IPA Flow Back
    Time % Sol 20 mM [ml/ Temp pressure
    [min] [scCO2] NH3] min] [° C.] [PSI]
     0.0 70.0 30.0 4.0 40.0 2175.0
    10.0 70.0 30.0 4.0 40.0 2175.0
  • Column: Lux® Amylose-2_4.6×250 mm_5 μm
  • For preparative scale: Lux® Amylose-2_21.2×250 mm_5 μm; Flow 60 mL/min
  • Method E
  • Gradient/ % Sol
    Solvent [IPA Flow Back
    Time % Sol 20 mM [ml/ Temp pressure
    [min] [scCO2] NH3] min] [° C.] [PSI]
     0.0 80.0 20.0 4.0 40.0 2175.0
    10.0 80.0 20.0 4.0 40.0 2175.0
  • Column: CHIRAL ART® Amylose SA_4.6×250 mm_5 μm
  • For preparative scale: CHIRAL ART® Amylose SA_20×250 mm_5 μm; Flow 80 mL/min
  • Method F
  • Gradient/ % Sol
    Solvent [IPA Flow Back
    Time % Sol 20 mM [ml/ Temp pressure
    [min] [scCO2] NH3] min] [° C.] [PSI]
     0.0 75.0 25.0 4.0 40.0 2175.0
    10.0 75.0 25.0 4.0 40.0 2175.0
  • Column: CHIRAL ART® Amylose SA_4.6×250 mm_5 μm
  • For preparative scale: CHIRAL ART® Amylose SA_20×250 mm_5 μm; Flow 60 mL/min
  • Method G
  • Gradient/ % Sol
    Solvent [MeOH Flow Back
    Time % Sol 20 mM [ml/ Temp pressure
    [min] [scCO2] NH3] min] [° C.] [PSI]
     0.0 60.0 40.0 4.0 40.0 2175.0
    10.0 60.0 40.0 4.0 40.0 2175.0
  • Column: CHIRAL ART® Amylose SA_4.6×250 mm_5 μm
  • Method H
  • Gradient/ % Sol
    Solvent [Water % Sol Flow
    Time 0.1% FA [Ace- [ml/ Temp
    [min] (v/v)] tonitrile] min] [° C.]
    0.0 97.0 3.0 2.2 60.0
    0.2 97.0 3.0 2.2 60.0
    1.2 0.0 100.0 2.2 60.0
    1.25 0.0 100.0 3.0 60.0
    1.4 0.0 100.0 3.0 60.0
  • Column: Sunfire C18_3.0×30 mm_2.5 μm
  • Method I
  • Gradient/ % Sol
    Solvent [Water % Sol Flow
    Time 0.1% TFA [Ace- [ml/ Temp
    [min] (v/v)] tonitrile] min] [° C.]
    0.0 97.0 3.0 2.2 60.0
    0.2 97.0 3.0 2.2 60.0
    1.2 0.0 100.0 2.2 60.0
    1.25 0.0 100.0 3.0 60.0
    1.4 0.0 100.0 3.0 60.0
  • Column: Zorbax StableBond C18_3.0×30 mm_1.8 μm
  • Method J
  • Gradient/ % Sol
    Solvent [IPA Flow Back
    Time % Sol 20 mM [ml/ Temp pressure
    [min] [scCO2] NH3] min] [° C.] [PSI]
     0.0 85.0 15.0 4.0 40.0 2175.0
    10.0 85.0 15.0 4.0 40.0 2175.0
  • Column: Lux® Cellulose-3_4.6×250 mm_5 μm
  • For preparative scale: Lux® Cellulose-3_10×250 mm_5 μm; Flow 10 mL/min
  • Method K
  • Gradient/ % Sol
    Solvent [MeOH Flow Back
    Time % Sol 20 mM [ml/ Temp pressure
    [min] [scCO2] NH3] min] [° C.] [PSI]
     0.0 75.0 25.0 4.0 40.0 2175.0
    10.0 75.0 25.0 4.0 40.0 2175.0
  • Column: CHIRAL ART® Cellulose SB_4.6×250 mm_5 μm
  • For preparative scale: CHIRAL ART® Cellulose-SB_20×250 mm_5 μm; Flow 60 mL/min
  • Method L
  • Gradient/ % Sol
    Solvent [Water % Sol Flow
    Time 0.1% [Ace- [ml/ Temp
    [min] NH3] tonitrile min] [° C.]
    0.0 95.0 5.0 1.5 60.0
    1.3 0.0 100.0 1.5 60.0
    1.5 0.0 100.0 1.5 60.0
    1.6 95.0 5.0 1.5 60.0
  • Column: XBridge C18_3.0×30 mm_2.5 μm
  • Description of Biological Properties
  • Vanin-1 Enzymatic Assay:
  • The test compounds are dissolved in 100% DMSO at a concentration of 10 mM and in a first step diluted in DMSO to a concentration of 5 mM, followed by serial dilution steps in 100% DMSO. Dilution factor and number of dilution steps may vary according to needs. Typically 8 different concentrations by 1:5 dilutions are prepared, a further intermediate dilutions of the substances is carried out with assay buffer resulting in 1% final DMSO concentration in the assay.
  • 0.1 nM of FLAG-tagged Vanin-1 (AA 22-493, T26I, produced internally) and test compounds are incubated at room temperature for 20 minutes in assay buffer (1 mM DTT, 0.0025% Brij-35, 50 mM HEPES, pH7.5). D-Pantethine (Sigma, Cat #P2125-5G) in assay buffer is added (final concentration 3 μM) and incubated for additional 30 minutes at room temperature. Total assay volume typically is 40 μl but might be adjusted according to needs. Reaction is stopped by adding equal volume of stop solution as the reaction mixture to reach 100 nM HD-pantothenic acid (as an internal standard) and 1% TFA. Assay plates are centrifuged for 2 minutes and the formation of pantothenic acid is detected by RapidFire Mass Spectrometry (mobile phase A: 0.1% formic acid and 0.01% trifluoroacetic acid in water; mobile phase B: 47.5% acetonitrile, 47.5% methanol, 0.1% formic acid and 0.01% trifluoroacetic acid in water) using a C18, 12 μL cartridge (Agilent Cat #G9205A).
  • The values given in Table I result from measurements of one or more samples. In case of multiple measurements the geometric mean values are given.
  • Human Whole Blood assay: Pantetheinase (vanin) converts panteheine into pantothenic acid and cysteamine. Accordingly, in the described protocol vanin activity is quantified by formation of pantothenic acid after pantetheine supplementation via pantethine. The assay is applicable to identify vanin inhibitors. Compound stocks were dissolved in DMSO at 10 mM. Further dilutions were performed in RPMI 1640 medium (Gibco, #A-10491-01) and final concentrations in the assay were 0.032 nM-500 nM.
  • Human blood was drawn into a blood bag (1% heparin, 50 I.E./mL). Blood was aliquoted into cavities of 96-deep-well plates at 290 μL and mixed with 10 μL compound solution or vehicle (30 sec at 1400 rpm on a shaker). Equilibration followed at room temperature, 250 rpm and for 30 min. The assay was started by adding 10 μL of substrate solution (20 μM pantethine in 1 mM DTT, 0.0025% Brij-35, 50 mM HEPES, pH7.5) to each well, except for some blank wells which received 10 mL substrate buffer (1 mM DTT, 0.0025% Brij-35, 50 mM HEPES, pH7.5) only. Samples were thoroughly shaken (30 sec, 1400 rpm) and reaction was allowed to take place at room temperature, 250 rpm and for 5 min. The reaction was stopped by addition of a vanin tool inhibitor in excess (BI-1 total conc. 10 μM). Centrifugation of the plate followed at 4° C., 665 G for 10 min. Then the blood plasma samples (100 μL) were transferred into another 96-deep-well plate and proteins were precipitated (5 min on ice) by adding 100 μL of ice cold precipitation solution (1 μM labelled pantothenic acid (di-β-alanine-13C6,15N2 calcium salt, Sigma, #705837) in acetonitrile). Afterwards the plate was centrifuged (4° C., 3220 G, 10 min) and supernatants (50 μL) were collected into another 96-deep-well plate and mixed (10 sec, 1400 rpm) with 150 μL ice cold formic acid (0.1%, Carl Roth GmbH+Co.KG, #CP03.1). The formation of pantothenic acid is detected by RapidFire Mass Spectrometry. A TripleQuad 6500+ (ABSciex, Germany) was equipped with an LC-1290 system, a RapidFire autosampler (Agilent, Germany) and a C18 cartridge Type C 12 μL (Agilent Cat #G9526-80000). Mobile phase A was consisting of 0.09% formic acid and 0.01% trifluoroacetic acid in water and mobile phase B of 0.09% formic acid and 0.01% trifluoroacetic acid in acetonitrile/methanol/water=47.5/47.5/5.
  • Synthesis of Tool Inhibitor BI-1:
  • Figure US20210059992A1-20210304-C00220
    Figure US20210059992A1-20210304-C00221
  • To 70 mL MeOH are added 5.40 g (28.8 mmol) ketone 1 (synthesis described in Angew. Chem. Int. Ed. 2010, 49, 6856) and 12.9 g (34.6 mmol) CeCl3*7 H2O. The reaction mixture is cooled to −15° C. before 2.18 g (57.7 mmol) NaBH4 are added portion wise. The reaction mixture is stirred for 3 h at 0° C. The reaction is quenched by the addition of saturated aq. NH4Cl solution and extracted with EtOAc. The organic layers are combined, dried over Na2SO4 and the solvent is removed in vacuo.
  • A stirred solution of 6.29 g (52.8 mmol) thionyl chloride in 50 mL acetonitrile is cooled to the −50° C. and a solution of 4 g (21.1 mmol) in ACN of the above mentioned product is added drop wise. When addition completed then 258 mg (2.11 mmol) DMAP are added in one portion. The mixture is stirred for 15 min, keeping temperature below −40° C., and then 8.36 g (106 mmol) dry pyridine are added, keeping external temperature at −40° C. Stirring is continued for 1 h. EtOAc is added, stirred for 5 mins, suspension appeared (pyridine salt) which was filtered and washed with EtOAc. To the filtrate is added 12 mL saturated Na2HPO4 slowly. The resulting solution is stirred for 40 mins. Two layers were separated. The organic layer is washed with 10 mL 1M NaHSO4 aqueous, dried over Na2SO4 and concentrated under reduced pressure. The crude compound is purified by column chromatography (silica gel, 8% EtOAc in hexane).
  • C9H17NO4S (M=235.3 g/mol)
  • ESI-MS: 258 [M+Na]+
  • Rf (TLC, silica gel) 0.4 (PE/EtOAc 3/1)
  • To a solution of 1.00 g (0.004 mol) of the above described product in 10,000 ml EtOAc are added 1.36 g (0.006 mol) NaIO4 in 10 mL H2O Then 44 mg (0.2 mmol) RuCl3 are added and the mixture is stirred at 0 to 15° C. for 12 h. The mixture is quenched with H2O (20 mL) and extracted with EtOAc. Then the organic phase is washed with brine (20 mL), dried over Na2SO4, filtered and concentrated to dryness. The residue is purified by column chromatography (silica gel, PE/EtOAc=10:1 to 3:1).
  • C9H17NO5S (M=251.3 g/mol)
  • ESI-MS: 252 [M+H]+
  • Rf (TLC, silica gel) 0.55 (PE/EtOAc 3/1)
  • 4.00 g (14.3 mmol) methyl 5-hydroxy-6-iodopyridine-3-carboxylate are added to 40 ml of DMF. To this are added 602 mg (15.1 mmol) sodium hydride . After gas evolution, 5.40 g (21.5 mmol) are added and the reaction mixture is stirred at 75 C for 1.5 h. After cooling down to RT, the reaction mixture is diluted with EtOAc and rinsed with water. The organics were dried, filtered, and evaporated.
  • The residue is purified by column chromatography (silica gel, 0-5% MeOH/CH2Cl2).
  • C16H23IN2O5 (M=450.3 g/mol)
  • ESI-MS: 451 [M+H]+
  • 5.00 g (11.1 mmol) of the above mentioned product are added to in 50 ml of MeOH and 10 ml of CH2Cl2. To this are added 50 ml of 4 M HCl in dioxane. After 3 h the volatiles are removed in vauo and the residue used without further purification.
  • 3.28 g (9.37 mmol) of the above mentioned product, 105 mg (0.47 mmol) Pd(OAc)2, 0.33 g (0.56 mmol), 9,9-dimethyl-4,5-bis(diphenylphosphino)xanthene (0.33 g; 0.56 mmol; 6.00 mol %) and 9.16 g (28.1 mmol) cesium carbonate are added to 100 ml dioxane and the mixture is degassed thoroughly. The reaction mixture is stirred at 90° C. under argon for 4 h. The solids are filtered through a plug of Celite® and evaporated. The residue is purified by column chromatography (silica gel, 0-5% MeOH/CH2Cl2).
  • 1.50 g (6.75 mmol) of the above mentioned product are added to 5 ml of MeOH and 70 ml of water. To this are added 323mg (13.5 mmol) LiOH and the reaction mixture is stirred at 50° C. for lh. The reaction is filtered and the MeOH is removed in vacuo. The aqueous layer is neutralized with 1 M HCl. The solids are filtered and allowed to dry and used without further purification.
  • C10H12N2O3 (M=208.2 g/mol)
  • ESI-MS: 209 [M+H]+
  • Rt (HPLC): 0.60 min (method A)
  • 915 mg (4.39 mmol) of the above mentioned product are dissolved in 20 ml of DMF. To this are added 0.86 g (4.83 mmol) of intermediate XVI and 1.84 ml (13.2 mmol) TEA) followed by 1.84 g (4.83 mmol) HATU. The reaction mixture is stirred at RT for 16 h.
  • Volatiles are removed in vacuo and the residue is purified by column chromatography (Biotage KP-Nh cartridge, 0-10% MeOH/EtOAc).
  • C17H24N4O3 (M=332.4 g/mol)
  • ESI-MS: 333 [M+H]+
  • Rt (HPLC): 0.63 min (method A)
  • Other features and advantages of the present invention will become apparent from the following more detailed Examples which illustrate, by way of example, the principles of the invention
  • TABLE I
    Biological properties of representatives of the present invention
    VNN 1
    IC50 HWB IC50
    Ex. Structure (nM) (nM)
    1.1
    Figure US20210059992A1-20210304-C00222
         		2.5
    1.2
    Figure US20210059992A1-20210304-C00223
         		1.5 11.5
    1.3
    Figure US20210059992A1-20210304-C00224
         		1.6
    1.4
    Figure US20210059992A1-20210304-C00225
         		4.9
    1.5
    Figure US20210059992A1-20210304-C00226
         		10.4
    2.1
    Figure US20210059992A1-20210304-C00227
         		0.9 2.5
    2.2
    Figure US20210059992A1-20210304-C00228
         		1.1 9.5
    2.3
    Figure US20210059992A1-20210304-C00229
         		4.6
    2.4
    Figure US20210059992A1-20210304-C00230
         		0.6 2.8
    2.5
    Figure US20210059992A1-20210304-C00231
         		2.1
    3.1
    Figure US20210059992A1-20210304-C00232
         		2.3 38.0
    4.1
    Figure US20210059992A1-20210304-C00233
         		0.1 1.4
    4.2
    Figure US20210059992A1-20210304-C00234
         		1.7
    4.3
    Figure US20210059992A1-20210304-C00235
         		0.1 1.4
    4.4
    Figure US20210059992A1-20210304-C00236
         		0.1 2.1
    5.1
    Figure US20210059992A1-20210304-C00237
         		0.4 3.6
    5.2
    Figure US20210059992A1-20210304-C00238
         		0.1 1.5
    5.3
    Figure US20210059992A1-20210304-C00239
         		0.1 1.5
    5.4
    Figure US20210059992A1-20210304-C00240
         		87.1
    5.5
    Figure US20210059992A1-20210304-C00241
         		0.2 17.2
    5.6
    Figure US20210059992A1-20210304-C00242
         		0.6 10.3
    6
    Figure US20210059992A1-20210304-C00243
         		0.2 1.9
    7.1
    Figure US20210059992A1-20210304-C00244
         		0.1
    7.2
    Figure US20210059992A1-20210304-C00245
         		0.1 2.0
    7.3
    Figure US20210059992A1-20210304-C00246
         		18.9 424.0
    7.4
    Figure US20210059992A1-20210304-C00247
         		0.1 1.9
    8.1
    Figure US20210059992A1-20210304-C00248
         		0.2 4.3
    8.2
    Figure US20210059992A1-20210304-C00249
         		0.1 2.6
    8.3
    Figure US20210059992A1-20210304-C00250
         		0.1 3.8
    9.1
    Figure US20210059992A1-20210304-C00251
         		0.1 3.0
    9.2
    Figure US20210059992A1-20210304-C00252
         		1.4
    9.3
    Figure US20210059992A1-20210304-C00253
         		0.2 2.1
    9.4
    Figure US20210059992A1-20210304-C00254
         		25.9
    10
    Figure US20210059992A1-20210304-C00255
         		0.2
    11.1
    Figure US20210059992A1-20210304-C00256
         		1.7
    11.2
    Figure US20210059992A1-20210304-C00257
         		0.3 4.5
    11.3
    Figure US20210059992A1-20210304-C00258
         		0.2 2.9
    11.4
    Figure US20210059992A1-20210304-C00259
         		0.9 11.4
    11.5
    Figure US20210059992A1-20210304-C00260
         		4.3
    11.6
    Figure US20210059992A1-20210304-C00261
         		0.5 12.6
    11.7
    Figure US20210059992A1-20210304-C00262
         		4.9
    11.8
    Figure US20210059992A1-20210304-C00263
         		0.7 5.2
    11.9
    Figure US20210059992A1-20210304-C00264
         		0.7 3.5
    11.10
    Figure US20210059992A1-20210304-C00265
         		0.6 10.6
    11.11
    Figure US20210059992A1-20210304-C00266
         		0.5 6.9
    11.12
    Figure US20210059992A1-20210304-C00267
         		0.5 5.7
    12.1
    Figure US20210059992A1-20210304-C00268
         		20.3
    12.2
    Figure US20210059992A1-20210304-C00269
         		0.3 8.2
    12.3
    Figure US20210059992A1-20210304-C00270
         		0.4
    12.4
    Figure US20210059992A1-20210304-C00271
         		2.5
    12.5
    Figure US20210059992A1-20210304-C00272
         		1.5
    12.6
    Figure US20210059992A1-20210304-C00273
         		2.7
    12.7
    Figure US20210059992A1-20210304-C00274
         		1.4
    13.1
    Figure US20210059992A1-20210304-C00275
         		0.2
    13.2
    Figure US20210059992A1-20210304-C00276
         		23.5
    13.3
    Figure US20210059992A1-20210304-C00277
         		0.3
    13.4
    Figure US20210059992A1-20210304-C00278
         		11.5

Claims (16)

1. A compound of the formula I,
Figure US20210059992A1-20210304-C00279
or a pharmaceutically acceptable salt thereof, wherein
n denotes 1, 2 or 3;
m denotes 1, 2 or 3;
R1 and R2 are independently from each other selected from the group consisting of H, C1-4-alkyl optionally substituted by 1-3 F-atoms or C1-2-alkoxy, 6-10 membered aryl substituted by R2.1 and 5-6 membered heteroaryl substituted by R2.1,
wherein
R2.1 is selected from the group consisting of H, F, Cl, Br, —CN, NR2.1.1R2.1.2, SO2R2.1.3 and OR2.1.4,
wherein
R2.1.1, R2.1.2 independently from each other denote H, C1-4-alkyl or C3-4-cycloalkyl;
or
R2.1.1 and R2.1.2 together with the N-atom to which they are attached form a 4-5 membered heterocyclyl or a 6 membered heterocyclyl optionally containing one additional heteroatom selected from the group consisting of N and O;
R2.1.3 denotes C1-4-alkyl or NR2.1.1 R2.1.2,
R2.1.4 is selected from the group consisting of H, C1-4-alkyl, C3-5-cycloalkyl, 4-5 membered heterocyclyl containg 1 heteroatom selected from the group consisting of N and O.
wherein in the definition of R2.1.1, R2.1.2, R2.1.3 and R2.1.4 mentioned alkyl, cycloalkyl and heterocyclyl are optionally substituted by 1-3 F-atoms or one C1-2-alkoxy;
or
R1 and R2 together may form a 3-5 membered carbocycle or 4-6 membered heterocyclyl containg one heteroatom selected from the group consisting of N and O;
R3 denotes NR3.1R3.2;
or
R3 denotes a group of formula R3.a or R3.b
Figure US20210059992A1-20210304-C00280
wherein
X denotes CH2, NRX or O;
wherein RX denotes H or C1-3-alkyl;
R3.1 is selected from the group consisting of C1-4-alkyl-CO— optionally substituted by 1-3 F-atoms, C3-4-cycloalkyl or C1-2-alkoxy, R3.1.3R3.1.4N—CO—, R3.1.5O—CO—, pyrimidine, pyridine, C3-5-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2, 4-6 membered heterocyclyl-CO— substituted with R3.1.1 and R3.1.2, phenyl-CO— substituted with R3.1.1 and R3.1.2;
wherein
R3.1.1, R3.1.2 independently from each other are selected from the group consisting of H, —CH3, —OR3.1.1.1, F and —CN;
R3.1.3, R3.1.4 independently from each other denote H, C1-4-alkyl or C3-4-cycloalkyl;
or
R3.1.3 and R3.1.4 together with the N-atom to which they are attached form a form a 4-5 membered heterocyclyl or a 6 membered heterocyclyl optionally containing one additional heteroatom selected from the group consisting of N and O;
R3.1.5 is selected from the group consisting of C1-4-alkyl, C3-5-cycloalkyl, 4-5 membered heterocyclyl and C3-4-cycloalkyl-CH2—;
R3.1.1.1 denotes C1-4-alkyl, C3-5-cycloalkyl or 4-5 membered heterocyclyl;
wherein in the definition of R3.1.1, R3.1.2, R3.1.3, R3.1.4, R3.1.5 and R3.1.1.1 mentioned alkyl, cycloalkyl and heterocyclyl are optionally substituted by 1-3 F-atoms or one C1-2-alkoxy;
R3.2 is selected from the group consisting of H, C1-4-alkyl, C3-4-cycloalkyl, C3-4-cycloalkyl-C1-2-alkyl- and phenyl-C1-2-alkyl-;
wherein in the definition of R3.2 mentioned alkyl, cycloalkyl and phenyl are optionally substituted by 1-3 F-atoms or one C1-2-alkoxy;
R4 denotes hydrogen or C1-4-alkyl optionally substituted with 1 to 3 F-atoms;
or
R3 and R4 together form a 4-6-membered heterocycle containing one oxygen atom.
2. The compound according to claim 1,
wherein
m denotes 1,
or a pharmaceutically acceptable salt thereof.
3. The compound according to claim 1,
wherein
m denotes 2,
or a pharmaceutically acceptable salt thereof.
4. The compound according to claim 1,
wherein
n denotes 1 or 2,
or a pharmaceutically acceptable salt thereof.
5. The compound according to claim 1,
R1 denotes H or methyl,
or a pharmaceutically acceptable salt thereof.
6. The compound according to claim 1,
R2 denotes methyl, ethyl, pyrimidin or phenyl substituted by R2.1,
wherein
R2.1 is selected from the group consisting of H, F, Cl and —CN,
or a pharmaceutically acceptable salt thereof.
7. The compound according to claim 1, wherein
R3 denotes NR3.1R3.2,
or
R3 denotes a group of formula R3.a
Figure US20210059992A1-20210304-C00281
wherein
X denotes CH2 or O
R3.1 denotes —COCH3, pyrimidine, C3-4-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2
wherein
R3.1.1, R3.1.2 independently from each other denote H, CH3, F or —CN
R3.2 denotes CH3,
or a pharmaceutically acceptable salt thereof.
8. The compound according to claim 1, wherein
R3 and R4 together form a 6 membered heterocycle containing one oxygen atom. or a pharmaceutically acceptable salt thereof.
9. The compound according to claim 1, wherein
R4 denotes hydrogen,
or a pharmaceutically acceptable salt thereof.
10. The compound according to claim 1, wherein
n denotes 1 or 2;
m denotes 1;
R1 denotes methyl,
R2 denotes methyl or phenyl substituted by R2.1,
wherein
R2.1 is selected from the group consisting of H, F, Cl and —CN;
R3 denotes NR3.1R3.2;
or
R3 denotes a group of formula R3.a,
Figure US20210059992A1-20210304-C00282
wherein
X denotes CH2 or O;
R3.1 denotes —COCH3, pyrimidine, C3-4-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2
wherein
R3.1.1, R3.1.2 independently from each other denote H, —CH3, F or —CN;
R3.2 denotes CH3,
R4 denotes hydrogen;
or
R3 and R4 together form a 6 membered heterocycle containing one oxygen atom;
or a pharmaceutically acceptable salt thereof.
11. The compound according to claim 1,
wherein
n denotes 1 or 2;
m denotes 2;
R1 denotes H or methyl;
R2 denotes methyl, ethyl, pyrimidin or phenyl;
R3 denotes NR3.1R3.2;
or
R3 denotes a group of formula R3.a;
Figure US20210059992A1-20210304-C00283
wherein
X denotes CH2 or O;
R3.1 denotes —COCH3, pyrimidine C3-4-cycloalkyl-CO— substituted with R3.1.1 and R3.1.2,
wherein
R3.1.1, R3.1.2 independently from each other denote H, CH3, F or —CN;
R3.2 denotes CH3,
R4 denotes hydrogen,
or
R3 and R4 together form a 6 membered heterocycle containing one oxygen atom; or a pharmaceutically acceptable salt thereof.
12. The compound of formula I according to claim 1, selected from the group consisting of examples 6, 9.1, 8.2, 5.3, 2.1, 7.2, 13.3, 5.2, 13.1, 4.1, 11.10, 4.4, 11.9, 7.4, 4.3, 7.1, 8.3, 11.6, 10 and 9.3;
Figure US20210059992A1-20210304-C00284
Figure US20210059992A1-20210304-C00285
Figure US20210059992A1-20210304-C00286
Figure US20210059992A1-20210304-C00287
or a pharmaceutically acceptable salt thereof.
13. A pharmaceutical composition comprising a therapeutically effective amount of at least one compound of formula I according to claim 1 or a pharmaceutically acceptable salt thereof and one or more pharmaceutically acceptable excipients.
14. (canceled)
15. A method of treating a patient suffering from Crohn's disease, ulcerative colitis, atopic dermatitis, systemic sclerosis, Non-Alcoholic Steatohepathitis (NASH), psoriasis, chronic kidney disease, chronic obstructive pulmonary disease, idiopathic pulmonary fibrosis, rheumatoid arthritis, scleroderma, asthma, allergic rhinitis, allergic eczema, juvenile rheumatoid arthritis, juvenile idiopathic arthritis, graft versus host disease, psoriatic arthritis, Hyperlipidemia, colorectal cancer or pancreatic cancer related new onset diabetes, comprising administering to the patient the compound according to claim
16. A pharmaceutical composition comprising additionally to the compound of claim 1, a pharmaceutically active compound selected from the group consisting of an immunomodulatory agent, anti-inflammatory agent and a chemotherapeutic agent.
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