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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 :  2.06
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
17GV2Ligand/Ion{(3R,4R)-4-METHYL-3-[METHYL(7H-PYRROLO[2,3-D]PYRIMIDIN-4-YL)AMINO]PIPERIDIN-1-YL}(PYRROLIDIN-1-YL)METHANONE
2PTR4Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
17GV1Ligand/Ion{(3R,4R)-4-METHYL-3-[METHYL(7H-PYRROLO[2,3-D]PYRIMIDIN-4-YL)AMINO]PIPERIDIN-1-YL}(PYRROLIDIN-1-YL)METHANONE
2PTR2Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
17GV1Ligand/Ion{(3R,4R)-4-METHYL-3-[METHYL(7H-PYRROLO[2,3-D]PYRIMIDIN-4-YL)AMINO]PIPERIDIN-1-YL}(PYRROLIDIN-1-YL)METHANONE
2PTR2Mod. Amino AcidO-PHOSPHOTYROSINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:855 , GLY A:856 , GLY A:858 , GLY A:861 , VAL A:863 , ALA A:880 , LYS A:882 , MET A:929 , GLU A:930 , TYR A:931 , LEU A:932 , SER A:936 , ARG A:980 , LEU A:983 , GLY A:993 , ASP A:994 , HOH A:4156binding site for residue 7GV A 4000
2AC2SOFTWAREGLY B:856 , LYS B:857 , GLY B:858 , GLY B:861 , VAL B:863 , ALA B:880 , LYS B:882 , GLU B:930 , TYR B:931 , LEU B:932 , SER B:936 , ARG B:980 , ASN B:981 , LEU B:983 , ASP B:994 , HOH B:4154binding site for residue 7GV B 4001

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5TQ6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5TQ6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5TQ6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5TQ6)

(-) Exons   (0, 0)

(no "Exon" information available for 5TQ6)

(-) 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:276
                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhh.eeeeeeeee...eeeeeeee........eeeeeeee...hhhhhhhhhhhhhhhhhh.......eeeee....eeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeeee..eeee......ee.......ee....hhhhhhhhhhhhheehhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5tq6 A  843 QFEERHLKFLQQLGKGNFGSVEMCRYDPLQDNTGEVVAVKKLQHSTEEHLRDFEREIEILKSLQHDNIVKYKGVCYSNLKLIMEYLPYGSLRDYLQKHKERIDHIKLLQYTSQICKGMEYLGTKRYIHRDLATRNILVENENRVKIGDFGLTKVLPQDKEyyKVKESPIFWYAPESLTESKFSVASDVWSFGVVLYELFTYIEKSKSPPAEFMRMISIVTHLIELLKNNGRLPRPDGCPDEIYMIMTECWNNNVNQRPSFRDLALRVDQIRDNMAG 1132
                                   852       862       872       882       892       902       912      |926       936       946       956       966       976       986       996      1006||  ||1019      1029      1039      1049      1059     |1076      1086      1096      1106      1116      1126      
                                                                                                      919|                                                                               1007-PTR|                                              1065|                                                           
                                                                                                       924                                                                                1008-PTR                                               1073                                                           
                                                                                                                                                                                             1011|                                                                                                              
                                                                                                                                                                                              1015                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:273
                                                                                                                                                                                                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeeeee..eeeeeeee.........eeeeeee...hhhhhhhhhhhhhhhhhh.......eeeee....eeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee....hhh.eeeee..eeee......ee.......ee...hhhhhhhhhhhhheehhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5tq6 B  843 QFEERHLKFLQQLGKGNFGSVEMCRYDPLQDNTGEVVAVKKLQHSTEEHLRDFEREIEILKSLQHDNIVKYKGVCYSNLKLIMEYLPYGSLRDYLQKHKERIDHIKLLQYTSQICKGMEYLGTKRYIHRDLATRNILVENENRVKIGDFGLTKVLPQDKEyyKVKSPIFWYAPESLTESKFSVASDVWSFGVVLYELFTYIEKSKSPPAEFMRMISIVTHLIELLKNNGRLPRPDGCPDEIYMIMTECWNNNVNQRPSFRDLALRVDQIRDNM 1130
                                   852       862       872       882       892       902       912      |926       936       946       956       966       976       986       996      1006||  ||1020      1030      1040      1050      1060    ||1077      1087      1097      1107      1117      1127   
                                                                                                      919|                                                                               1007-PTR|                                             1065|                                                         
                                                                                                       924                                                                                1008-PTR                                              1073                                                         
                                                                                                                                                                                             1011|                                                                                                           
                                                                                                                                                                                              1016
   Legend:   → Mismatch (orange background)
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    → 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 5TQ6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5TQ6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5TQ6)

(-) 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 5tq7 5tq8 5usy 5usz 5ut0 5ut1 5ut2 5ut3 5ut4 5ut5 5ut6

(-) Related Entries Specified in the PDB File

5tq3 5tq4 5tq5 5tq7 5tq8