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(-) Description

Title :  DESIGN AND SYNTHESIS OF A PAN-JAK KINASE INHIBITOR CLINICAL CANDIDATE (PF-06263276) SUITABLE FOR INHALED AND TOPICAL DELIVERY FOR THE TREATMENT OF INFLAMMATORY DISEASES OF THE LUNGS AND SKIN
 
Authors :  J. Chrencik, P. Jones
Date :  23 Oct 16  (Deposition) - 11 Jan 17  (Release) - 08 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Kinase, Inflammation, Jak Inhibitor, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Jones, R. I. Storer, Y. A. Sabnis, F. M. Wakenhut, G. A. Whitlock, K. S. England, T. Mukaiyama, C. M. Dehnhardt, J. W. Coe, S. W. Kortum, J. E. Chrencik, D. G. Brown, R. M. Jones, J. R. Murphy, T. Yeoh, P. Morgan I. Kilty
Design And Synthesis Of A Pan-Janus Kinase Inhibitor Clinical Candidate (Pf-06263276) Suitable For Inhaled And Topical Delivery For The Treatment Of Inflammatory Diseases Of The Lungs And Skin.
J. Med. Chem. V. 60 767 2017
PubMed-ID: 27983835  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.6B01634

(-) Compounds

Molecule 1 - TYROSINE-PROTEIN KINASE JAK2
    Chains: A, B
    EC Number: 2.7.10.2
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Taxid: 9606
    Fragment: UNP RESIDUES 837-1132
    Gene: JAK2
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: JANUS KINASE 2,JAK-2

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
17GT2Ligand/Ion{(3R,4R)-4-METHYL-3-[METHYL(7H-PYRROLO[2,3-D]PYRIMIDIN-4-YL)AMINO]PIPERIDIN-1-YL}[(3R)-3-(PHENYLSULFONYL)PYRROLIDIN-1-YL]METHANONE
2PTR4Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
17GT1Ligand/Ion{(3R,4R)-4-METHYL-3-[METHYL(7H-PYRROLO[2,3-D]PYRIMIDIN-4-YL)AMINO]PIPERIDIN-1-YL}[(3R)-3-(PHENYLSULFONYL)PYRROLIDIN-1-YL]METHANONE
2PTR2Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
17GT1Ligand/Ion{(3R,4R)-4-METHYL-3-[METHYL(7H-PYRROLO[2,3-D]PYRIMIDIN-4-YL)AMINO]PIPERIDIN-1-YL}[(3R)-3-(PHENYLSULFONYL)PYRROLIDIN-1-YL]METHANONE
2PTR2Mod. Amino AcidO-PHOSPHOTYROSINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:855 , GLY A:856 , LYS A:857 , GLY A:858 , GLY A:861 , SER A:862 , VAL A:863 , ALA A:880 , GLU A:930 , TYR A:931 , LEU A:932 , SER A:936 , ARG A:980 , ASN A:981 , LEU A:983 , GLY A:993 , ASP A:994binding site for residue 7GT A 4000
2AC2SOFTWAREGLY B:856 , LYS B:857 , GLY B:858 , SER B:862 , VAL B:863 , ALA B:880 , GLU B:930 , TYR B:931 , LEU B:932 , SER B:936 , ARG B:980 , ASN B:981 , LEU B:983 , GLY B:993 , ASP B:994binding site for residue 7GT B 4000

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5TQ7)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:920 -Gly A:921

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5TQ7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5TQ7)

(-) Exons   (0, 0)

(no "Exon" information available for 5TQ7)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:277
                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhh.eeeeeeeeee..eeeeeeee........eeeeeeee...hhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeeee..eeee......ee.......ee...hhhhhhhhhhhhheehhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5tq7 A  841 PTQFEERHLKFLQQLGKGNFGSVEMCRYDPLQDNTGEVVAVKKLQHEHLRDFEREIEILKSLQHDNIVKYKGVCYSAGNLKLIMEYLPYGSLRDYLQKHKERIDHIKLLQYTSQICKGMEYLGTKRYIHRDLATRNILVENENRVKIGDFGLTKVLPQDKEyyKVESPIFWYAPESLTESKFSVASDVWSFGVVLYELFTYIEKSKSPPAEFMRMIGSIVTHLIELLKNNGRLPRPDGCPDEIYMIMTECWNNNVNQRPSFRDLALRVDQVRDNMAG 1132
                                   850       860       870       880     ||893       903       913       925       935       945       955       965       975       985       995      1005 || ||1019      1029      1039      1049      1059      1075      1085      1095      1105      1115      1125       
                                                                       886|                            921|                                                                               1007-PTR                                               1066|                                                           
                                                                        890                             924                                                                                1008-PTR                                               1073                                                           
                                                                                                                                                                                             1010|                                                                                                               
                                                                                                                                                                                              1015                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:271
                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhh.eeeeeeeeee..eeeeeeee.......eeeeeee...hhhhhhhhhhhhhh.......eeeee....eeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee....hhh.eeeee..eeee......ee.......ee....hhhhhhhhhhhhheehhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh..hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5tq7 B  843 QFEERHLKFLQQLGKGNFGSVEMCRYDPLNTGEVVAVKKLQHHLRDFEREIEILKSLQHDNIVKYKGVCYRNLKLIMEYLPYGSLRDYLQKHKERIDHIKLLQYTSQICKGMEYLGTKRYIHRDLATRNILVENENRVKIGDFGLTKVLPQDKEyyKVGESPIFWYAPESLTESKFSVASDVWSFGVVLYELFTYIEKSKSPPAEFMRMIGSIVTHLIELLKNNGRLPRPDGCPDEIYMIMTECWNNNVNQRPSFRDLALRVDQVRDNMAG 1132
                                   852       862       874       884 ||    898       908       918|      932       942       952       962       972       982       992      1002    ||1015      1025      1035      1045      1055      1065||    1081      1091      1101      1111      1121      1131 
                                                      871|         886|                        918|                                                                                1007-PTR                                                1066|                                                           
                                                       874          891                         923                                                                                 1008-PTR                                                1073                                                           
                                                                                                                                                                                      1010|                                                                                                                
                                                                                                                                                                                       1014
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5TQ7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5TQ7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5TQ7)

(-) Gene Ontology  (114, 114)

Asymmetric Unit(hide GO term definitions)

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  2.7.10.2
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        JAK2_HUMAN | O60674: 2b7a 2w1i 2xa4 3e62 3e63 3e64 3fup 3io7 3iok 3jy9 3kck 3krr 3lpb 3q32 3rvg 3tjc 3tjd 3ugc 3zmm 4aqc 4bbe 4bbf 4c61 4c62 4d0w 4d0x 4d1s 4e4m 4e6d 4e6q 4f08 4f09 4fvp 4fvq 4fvr 4gfm 4gmy 4hge 4iva 4ji9 4jia 4p7e 4ytc 4ytf 4yth 4yti 4z32 4zim 5aep 5cf4 5cf5 5cf6 5cf8 5hez 5i4n 5l3a 5tq3 5tq4 5tq5 5tq6 5tq8 5usy 5usz 5ut0 5ut1 5ut2 5ut3 5ut4 5ut5 5ut6

(-) Related Entries Specified in the PDB File

5tq3 5tq4 5tq5 5tq6 5tq8