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(-) Description

Title :  CRYSTAL STRUCTURE OF FMS KINASE DOMAIN WITH A SMALL MOLECULAR INHIBITOR, GLEEVEC
 
Authors :  Y. Zhang, C. Zhang
Date :  27 Aug 14  (Deposition) - 12 Aug 15  (Release) - 12 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Csf-1-R, Fms Proto-Oncogene, C-Fms, Cd115 Antigen, Kinase, Atp- Binding, Gleevec, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. D. Tap, Z. A. Wainberg, S. P. Anthony, P. N. Ibrahim, C. Zhang, J. H. Healey, B. Chmielowski, A. P. Staddon, A. L. Cohn, G. I. Shapiro, V. L. Keedy, A. S. Singh, I. Puzanov, E. L. Kwak, A. J. Wagner, D. D. Von Hoff, G. J. Weiss, R. K. Ramanathan, J. Zhang, G. Habets, Y. Zhang, E. A. Burton, G. Visor, L. Sanftner, P. Severson, H. Nguyen, M. J. Kim, A. Marimuthu, G. Tsang, R. Shellooe, C. Gee, B. L. West, P. Hirth, K. Nolop, M. Van De Rijn, H. H. Hsu, C. Peterfy, P. S. Lin, S. Tong-Starksen, G. Bollag
Structure-Guided Blockade Of Csf1R Kinase In Tenosynovial Giant-Cell Tumor.
N Engl J Med V. 373 428 2015
PubMed-ID: 26222558  |  Reference-DOI: 10.1056/NEJMOA1411366

(-) Compounds

Molecule 1 - MACROPHAGE COLONY-STIMULATING FACTOR 1 RECEPTOR
    Chains: A
    EC Number: 2.7.10.1
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Fragment: FMS KINASE DOMAIN WITH KID (UNP RESIDUES 538-919)
    Gene: CSF1R, FMS
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CSF-1 RECEPTOR, CSF-1-R, CSF-1R, M-CSF-R, PROTO-ONCOGENE C- FMS

 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
1STI1Ligand/Ion4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1STI1Ligand/Ion4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1STI2Ligand/Ion4-(4-METHYL-PIPERAZIN-1-YLMETHYL)-N-[4-METHYL-3-(4-PYRIDIN-3-YL-PYRIMIDIN-2-YLAMINO)-PHENYL]-BENZAMIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:596 , LYS A:616 , GLU A:633 , MET A:637 , THR A:663 , CYS A:666 , ILE A:775 , HIS A:776 , GLY A:795 , ASP A:796 , PHE A:797BINDING SITE FOR RESIDUE STI A 1001

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R7I)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4R7I)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4R7I)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4R7I)

(-) Exons   (0, 0)

(no "Exon" information available for 4R7I)

(-) 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:290
                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh.hhh.eeeeeeeee...eeeeeeeeeee....eeeeeeeeee....hhhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh........hhh.eeeehhheeee..hhhhhhhhhh...eee..eeehhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh............hhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r7i A 567 TQLPYNEKWEFPRNNLQFGKTLGAGAFGKVVEATAFGLGKEDAVLKVAVKMLKSTAHADEKEALMSELKIMSHLGQHENIVNLLGACTHGGPVLVITEYCTYGDLLNFLRRKAEAMLGPSLSGRPLELRDLLHFSSQVAQGMAFLASKNCIHRDVAARNVLLTNGHVAKIGDFGLARDIMNDSNYIVKGNARLPVKWMAPESIFDSVYTVQSDVWSYGILLWEIFSLGLNPYPGILVNSKFYKLVKDGYQMAQPAFAPKNIYSIMQACWALEPTHRPTFQQITSFLQEQA 914
                                   576       586       596       606       616       626       636       646       656       666       676       686 ||    754       764       774       784       794       804       814       824       834       844       854       864       874       884       894       904       914
                                                                                                                                                   688|                                                                                                                                                                       
                                                                                                                                                    747
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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  (0, 0)

(no "SCOP Domain" information available for 4R7I)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4R7I)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4R7I)

(-) Gene Ontology  (60, 60)

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  4r7i
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  CSF1R_HUMAN | P07333
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  2.7.10.1
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 Related Entries

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

UniProtKB/Swiss-Prot
        CSF1R_HUMAN | P07333: 2i0v 2i0y 2i1m 2ogv 3bea 3dpk 3krj 3krl 3lcd 3lco 4dkd 4hw7 4liq 4r7h 4wrl 4wrm

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4R7I)