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(-) Description

Title :  CRYSTAL STRUCTURE OF FMS KINASE DOMAIN WITH A SMALL MOLECULAR INHIBITOR, PLX3397
 
Authors :  Y. Zhang, K. Zhang, C. Zhang
Date :  27 Aug 14  (Deposition) - 12 Aug 15  (Release) - 12 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
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, Plx3397, 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
1P311Ligand/Ion5-[(5-CHLORO-1H-PYRROLO[2,3-B]PYRIDIN-3-YL)METHYL]-N-{[6-(TRIFLUOROMETHYL)PYRIDIN-3-YL]METHYL}PYRIDIN-2-AMINE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1P311Ligand/Ion5-[(5-CHLORO-1H-PYRROLO[2,3-B]PYRIDIN-3-YL)METHYL]-N-{[6-(TRIFLUOROMETHYL)PYRIDIN-3-YL]METHYL}PYRIDIN-2-AMINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1P312Ligand/Ion5-[(5-CHLORO-1H-PYRROLO[2,3-B]PYRIDIN-3-YL)METHYL]-N-{[6-(TRIFLUOROMETHYL)PYRIDIN-3-YL]METHYL}PYRIDIN-2-AMINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:550 , LEU A:588 , ALA A:614 , GLU A:633 , ILE A:636 , MET A:637 , GLU A:664 , CYS A:666 , LEU A:785 , GLY A:795 , ASP A:796 , HOH A:1104BINDING SITE FOR RESIDUE P31 A 1001

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R7H)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4R7H)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4R7H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4R7H)

(-) Exons   (0, 0)

(no "Exon" information available for 4R7H)

(-) 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:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......ee.......hhhhh..hhhhh.hhh.eeeeeeeee...eeeeeeeeeee....eeeeeeeeee....hhhhhhhhhhhhhhhhhhh.......eeeee......eeeee....eehhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh..ee....hhh.eee.hhh.eee..hhhhhhhhhh...ee....eehhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh............hhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r7h A 544 PKYQVRWKIIESYTFIDPTQLPYNEKWEFPRNNLQFGKTLGAGAFGKVVEATAFGLGKEDAVLKVAVKMLKSTAHADEKEALMSELKIMSHLGQHENIVNLLGACTHGGPVLVITEYCTYGDLLNFLRRKAEAMLGPSLGRPLELRDLLHFSSQVAQGMAFLASKNCIHRDVAARNVLLTNGHVAKIGDFGLARDIMNDSNYIVKGNARLPVKWMAPESIFDSVYTVQSDVWSYGILLWEIFSLGLNPYPGILVNSKFYKLVKDGYQMAQPAFAPKNIYSIMQACWALEPTHRPTFQQITSFLQEQAQ 915
                                   553 ||    568       578       588       598       608       618       628       638       648       658       668       678       747       757       767       777       787       797       807       817       827       837       847       857       867       877       887       897       907        
                                     555|                                                                                                                           687|                                                                                                                                                                        
                                      561                                                                                                                            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 4R7H)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4R7H)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4R7H)

(-) Gene Ontology  (60, 60)

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  4r7h
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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 4r7i 4wrl 4wrm

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4R7H)