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(-) Description

Title :  CRYSTAL STRUCTURE OF KIT KINASE DOMAIN WITH A SMALL MOLECULE INHIBITOR, PLX647
 
Authors :  Y. Zhang, C. Zhang
Date :  06 Nov 12  (Deposition) - 27 Mar 13  (Release) - 17 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Transferase, Tyrosine-Protein Kinase, Atp-Binding, Kinase-Kinase Inhibitor Complex, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Zhang, P. N. Ibrahim, J. Zhang, E. A. Burton, G. Habets, Y. Zhang, B. Powell, B. L. West, B. Matusow, G. Tsang, R. Shellooe, H. Carias, H. Nguyen, A. Marimuthu, K. Y. Zhang, A. Oh, R. Bremer, C. R. Hurt, D. R. Artis, G. Wu, M. Nespi, W. Spevak, P. Lin, K. Nolop, P. Hirth, G. H. Tesch, G. Bollag
Design And Pharmacology Of A Highly Specific Dual Fms And Kit Kinase Inhibitor.
Proc. Natl. Acad. Sci. Usa V. 110 5689 2013
PubMed-ID: 23493555  |  Reference-DOI: 10.1073/PNAS.1219457110

(-) Compounds

Molecule 1 - MAST/STEM CELL GROWTH FACTOR RECEPTOR KIT
    Chains: A
    EC Number: 2.7.10.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: KIT KINASE DOMAIN WITH KID DELETED
    Gene: KIT, SCFR
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: SCFR, PIEBALD TRAIT PROTEIN, PBT, PROTO-ONCOGENE C-KIT, TYROSINE-PROTEIN KINASE KIT, P145 C-KIT, V-KIT HARDY-ZUCKERMAN 4 FELINE SARCOMA VIRAL ONCOGENE HOMOLOG

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
16471Ligand/Ion5-(1H-PYRROLO[2,3-B]PYRIDIN-3-YLMETHYL)-N-[4-(TRIFLUOROMETHYL)BENZYL]PYRIDIN-2-AMINE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
16471Ligand/Ion5-(1H-PYRROLO[2,3-B]PYRIDIN-3-YLMETHYL)-N-[4-(TRIFLUOROMETHYL)BENZYL]PYRIDIN-2-AMINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
16472Ligand/Ion5-(1H-PYRROLO[2,3-B]PYRIDIN-3-YLMETHYL)-N-[4-(TRIFLUOROMETHYL)BENZYL]PYRIDIN-2-AMINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:557 , ALA A:621 , LYS A:623 , GLU A:640 , LEU A:647 , ILE A:653 , VAL A:654 , THR A:670 , GLU A:671 , TYR A:672 , CYS A:673 , LEU A:783 , HIS A:790 , LEU A:799 , ILE A:808 , CYS A:809 , ASP A:810BINDING SITE FOR RESIDUE 647 A 1001

(-) SS Bonds  (0, 0)

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(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

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(-) Sequences/Alignments

Asymmetric Unit
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Chain A from PDB  Type:PROTEIN  Length:326
                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4hvsa_ A: automated matches                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh....eeeee.....eee.hhhhh..hhhhh.hhh.eeeeeeeee...eeeeeeeee.......eeeeeeeee....hhhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhh..ee....hhhhh.hhhhheehhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeee...eeee..hhhhhhhhhh...ee....eehhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh...........hhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hvs A 548 HHMPMYEVQWKVVEESNGNNYSYIDPTQLPYDHKWEFPRNRLSFGKTLGAGAFGKVVEATAQGLIKSDAAMTVAVKMLKPSAHSTEREALMSELKVLSYLGNHENIVNLLGACTHGGPTLVITEYCCYGDLLNFLRRKRDSFHSSDTSPASMEDDENALDLEDLLSFSYQVAKGMAFLASKNCIHRDLAARNILLTHGRITKICDFGLARDIKNDSNYVDKGNARLPVKWMAPESIFNSVYTFESDVWSYGIFLWELFSLGSSPYPGMPVDSKFYKMIKEGFRMSSPEHAPAEMYDIMKTCWDADPDKRPTFKQIVQDIEKQISES 931
                                   557       567       577       587       597       607       617       627       637       647       657       667       677       687      |755       765       775       785       795       805       815       825       835       845       855       865       875       885       895       905       915       925      
                                                                                                                                                                            694|                                                                                                                                                                                  
                                                                                                                                                                             753
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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(-) Gene Ontology  (104, 104)

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 Related Entries

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

UniProtKB/Swiss-Prot
        KIT_HUMAN | P10721: 1pkg 1qzj 1qzk 1r01 1t45 1t46 2e9w 2ec8 2iuh 2vif 3g0e 3g0f 4k94 4k9e 4pgz 4u0i

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