Pyrimidine compounds as tuberculosis inhibitors

Abstract

The present invention relates to compounds useful as inhibitors of treating tuberculosis. The invention also provides processes for preparing compounds of the inventions and

We claim: 
     
         1 . A compound of formula II: 
       
         
           
           
               
               
           
         
       
       or a pharmaceutically acceptable salt thereof, wherein:
 Ring D is a 5-7 membered monocyclic ring or 8-10 membered bicyclic ring selected from aryl, heteroaryl, heterocyclyl or carbocyclyl, said heteroaryl or heterocyclyl ring having 1-4 ring heteroatoms selected from nitrogen, oxygen or sulfur, wherein Ring D is independently substituted at any substitutable ring carbon by oxo or —R 5 , and at any substitutable ring nitrogen by —R 4 ; 
 R x  and R y  are independently selected from T-R 3 , or R x  and R y  are taken together with their intervening atoms to form a fused, unsaturated or partially unsaturated, 5-8 membered ring having 1-3 ring heteroatoms selected from oxygen, sulfur, or nitrogen, wherein any substitutable carbon on said fused ring is optionally and independently substituted by T-R 3 , and any substitutable nitrogen on said ring is substituted by R 4 ; 
 T is a valence bond or a C 1-4  alkylidene chain; 
 R 2′  is independently selected from —R, -T-W—R 6 , or R 2  and R 2′  are taken together with their intervening atoms to form a fused, 5-8 membered, unsaturated or partially unsaturated, ring containing 0-3 ring heteroatoms selected from nitrogen, oxygen, or sulfur, wherein said fused ring is optionally substituted by up to three groups independently selected from halo, oxo, —CN, —NO 2 , —R 7 , or —V—R 6 ; 
 R 3  is selected from —R, -halo, ═O, —OR, —C(═O)R, —CO 2 R, —COCOR, —COCH 2 COR, —NO 2 , —CN, —S(O)R, —S(O) 2 R, —SR, —N(R 4 ) 2 , —CON(R 4 ) 2 , —SO 2 N(R 4 ) 2 , —OC(═O)R, —N(R 4 )COR, —N(R 4 )CO 2  (optionally substituted C 1-6  aliphatic), —N(R 4 )N(R 4 ) 2 , —C═NN(R 4 ) 2 , —C═N—OR, —N(R 4 )CON(R 4 ) 2 , —N(R 4 )SO 2 N(R 4 ) 2 , —N(R 4 )S O 2 R, or —OC(═O)N(R 4 ) 2 ; 
 each R is independently selected from hydrogen or an optionally substituted group selected from C 1-6  aliphatic, C 6-10  aryl, a heteroaryl ring having 5-10 ring atoms, or a heterocyclyl ring having 5-10 ring atoms; 
 each R 4  is independently selected from —R 7 , —COR 7 , —CO 2  (optionally substituted C 1-6  aliphatic), —CON(R 7 ) 2 , or —SO 2 R 7 , or two R 4  on the same nitrogen are taken together to form a 5-8 membered heterocyclyl or heteroaryl ring; 
 each R 5  is independently selected from —R, halo, —OR, —C(═O)R, —CO 2 R, —COCOR, —NO 2 , —CN, —S(O)R, —SO 2 R, —SR, —N(R 4 ) 2 , —CON(R 4 ) 2 , —S O 2 N(R 4 ) 2 , —OC(═O)R, —N(R 4 )COR, —N(R 4 )CO 2  (optionally substituted C 1-6  aliphatic), —N(R 4 )N(R 4 ) 2 , —C═NN(R 4 ) 2 , —C═N—OR, —N(R 4 )CON(R 4 ) 2 , —N(R 4 )SO 2 N(R 4 ) 2 , —N(R 4 )S O 2 R, or —OC(═O)N(R 4 ) 2 ; 
 V is —O—, —S—, —SO—, —SO 2 —, —N(R 6 )SO 2 —, —SO 2 N(R 6 )—, —N(R 6 )—, —CO—, —CO 2 —, —N(R 6 )CO—, —N(R 6 )C(O) O—, —N(R 6 )CON(R 6 )—, —N(R 6 )SO 2 N(R 6 )—, —N(R 6 )N(R 6 )—, —C(O)N(R 6 )—, —OC(O)N(R 6 )—, —C(R 6 ) 2 O—, —C(R 6 ) 2 S—, —C(R 6 ) 2 SO—, —C(R 6 ) 2 SO 2 —, —C(R 6 ) 2 SO 2 N(R 6 )—, —C(R 6 ) 2 N(R 6 )—, —C(R 6 ) 2 N(R 6 )C(O)—, —C(R 6 ) 2 N(R 6 )C(O)O—, —C(R 6 )═NN(R 6 )—, —C(R 6 )═N—O—, —C(R 6 ) 2 N(R 6 )N(R 6 )—, —C(R 6 ) 2 N(R 6 )SO 2 N(R 6 )—, or —C(R 6 ) 2 N(R 6 )CON(R 6 )—; 
 W is —C(R 6 ) 2 O—, —C(R 6 ) 2 S—, —C(R 6 ) 2 SO—, —C(R 6 ) 2 SO 2 —, —C(R 6 ) 2 SO 2 N(R 6 )—, —C(R 6 ) 2 N(R 6 )—, —CO—, —CO 2 —, —C(R 6 )OC(O)—, —C(R 6 )OC(O)N(R 6 )—, —C(R 6 ) 2 N(R 6 )CO—, —C(R 6 ) 2 N(R 6 )C(O)O—, —C(R 6 )═NN(R 6 )—, —C(R 6 )═N—O—, —C (R 6 ) 2 N(R 6 )N(R 6 )—, —C(R 6 ) 2 N(R 6 )SO 2 N(R 6 )—, —C(R 6 ) 2 N(R 6 )CON(R 6 )—, or —CON(R 6 )—; 
 each R 6  is independently selected from hydrogen or an optionally substituted C 1-4  aliphatic group, or two R 6  groups on the same nitrogen atom are taken together with the nitrogen atom to form a 5-6 membered heterocyclyl or heteroaryl ring; and 
 each R 7  is independently selected from hydrogen or an optionally substituted C 1-6  aliphatic group, or two R 7  on the same nitrogen are taken together with the nitrogen to form a 5-8 membered heterocyclyl ring or heteroaryl. 
 
     
     
         2 . The compound of  claim 1 , wherein:
 Ring D is a phenyl, pyridinyl, piperidinyl, piperazinyl, furanyl, pyrrolidinyl, thienyl, 1,4-diazepane, 1,2,3,4-tetrahydropyridinyl, azepanyl, morpholinyl, thiazolyl, 1,2,3,4-tetrahydroisoquinolinyl, 1,2,3,4-tetrahydroquinolinyl, 2,3-dihydro-1H-isoindolyl, 1H-indolyl, 2,3-dihydro-1H-indolyl, isoquinolinyl, quinolinyl, or naphthyl ring.   
     
     
         3 . The compound of  claim 1 , wherein:
 Ring D is pyridinyl, piperidinyl, piperazinyl, furanyl, pyrrolidinyl, thienyl, 1,4-diazepane, 1,2,3,4-tetrahydropyridinyl, azepanyl, morpholinyl, thiazolyl, 1,2,3,4-tetrahydroisoquinolinyl, 1,2,3,4-tetrahydroquinolinyl, 2,3-dihydro-1H-isoindolyl, 1H-indolyl, 2,3-dihydro-1H-indolyl, isoquinolinyl, quinolinyl, or naphthyl ring.   
     
     
         4 . The compound of  claim 1 , wherein: Ring D is a 5-7 membered monocyclic ring selected from heteroaryl, heterocyclyl or carbocyclyl, said heteroaryl or heterocyclyl ring having 1-4 ring heteroatoms selected from nitrogen, oxygen or sulfur, wherein Ring D is independently substituted at any substitutable ring carbon by oxo or —R 5 , and at any substitutable ring nitrogen by —R 4 . 
     
     
         5 . The compound of  claim 1 , wherein Ring D is pyridinyl, piperidinyl, piperazinyl, furanyl, thiazolyl, pyrrolidinyl, thienyl, 1,4-diazepane or 1,2,3,4-tetrahydropyridinyl. 
     
     
         6 . The compound of  claim 1 , wherein Ring D is a 5-7 membered monocyclic heteroaryl ring. 
     
     
         7 . The compound of  claim 1 , wherein Ring D is pyridinyl, thienyl, thiazolyl or furanyl. 
     
     
         8 . The compound of  claim 1 , wherein Ring D is thienyl or thiazolyl. 
     
     
         9 . The compound of  claim 1 , wherein Ring D is thienyl. 
     
     
         10 . The compound of  claim 1 , wherein Ring D is substituted with —(C 1-6  aliphatic), —R 8 SO 2 N(R 1 ) 2 , —R 8 SO 2 N(R 1 ) 2 NR, —R 8 SO 2 OR, —R 8 SO 2 R, —R 8 SOR, —R 8 NR 2 , —C(O)R, —C(R) 2 —OH, —C(OH)(C 1-6  aliphatic)C(O) 2 R, —C(═O)R 8 N(R) 2 , —(C 1-3  aliphatic)-O—C(O)R, —NO 2 , —R 8 C(O) 2 R, —C(NH)(NH 2 ), —R 3 , —C(═O)C(═O)R 4 R and —C(═O)C(═O)OR, wherein R 8  is a bond, —NR— or —(C 1-6  aliphatic)N(R)—. 
     
     
         11 . The compound of  claim 1 , wherein:
 a) Ring D is substituted with —R 8 SO 2 N(R 1 ) 2 , —C(O)R or —C(R) 2 —OH; and   b) R 8  is a bond.   
     
     
         12 . The compound of  claim 1 , wherein:
 a) Ring D is substituted with —R 8 SO 2 N(R 1 ) 2 ; and   b) R 8  is a bond.   
     
     
         13 . The compound of  claim 1 , wherein:
 a) Ring D is substituted with —C(R) 2 —OH; and   b) R 8  is a bond.   
     
     
         14 . A compound selected from the following compounds, or a pharmaceutically acceptable salt thereof: 
       
         
           
           
               
               
           
         
         
           
           
               
               
           
         
       
     
     
         15 . A compound selected from the following compounds, or a pharmaceutically acceptable salt thereof: 
       
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
         
           
           
               
               
           
         
       
     
     
         14 . A composition for treating tuberculosis comprising a compound in the method according to any of  claims 1 ,  12  and  13  and a pharmaceutically acceptable excipient. 
     
     
         15 . The composition according to  claim 14  further comprising a second therapeutic agent. 
     
     
         16 . The method for treating tuberculosis, comprising:
 administering a subject a therapeutically effective amount of the compound in the method according to any one of  claims 1 ,  12  and  13  or the composition according to any one of  claims 14  and  15 , wherein the compound or the composition inhibits PknB kinase activity.   
     
     
         17 . The method according to  claim 16 , wherein the compound inhibits phosphorylation of a kinase substrate by PknB kinase. 
     
     
         18 . A method for inhibiting phosphorylation of a kinase substrate by PknB kinase in a subject comprising administering the subject a therapeutically effective amount of the compound of any one of  claims 1 ,  12  and  13  or the composition of  claim 14  or  15 .