3G0F Transferase date Jan 27, 2009
title Kit Kinase Domain Mutant D816h In Complex With Sunitinib
authors K.S.Gajiwala, J.C.Wu, E.A.Lunney, G.D.Demetri
compound source
Molecule: Maststem Cell Growth Factor Receptor
Chain: A, B
Fragment: Kinase Domain - Kid Deleted
Synonym: Scfr, Proto-Oncogene Tyrosine-Protein Kinase Kit, C-Kit;
Ec: 2.7.10.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Kit
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_vector_type: Virus
symmetry Space Group: P 21 21 2
R_factor 0.204 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
79.462 101.783 105.505 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand B49, SO4 enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceKIT kinase mutants show unique mechanisms of drug resistance to imatinib and sunitinib in gastrointestinal stromal tumor patients., Gajiwala KS, Wu JC, Christensen J, Deshmukh GD, Diehl W, Dinitto JP, English JM, Greig MJ, He YA, Jacques SL, Lunney EA, McTigue M, Molina D, Quenzer T, Wells PA, Yu X, Zhang Y, Zou A, Emmett MR, Marshall AG, Zhang HM, Demetri GD, Proc Natl Acad Sci U S A. 2009 Feb 3;106(5):1542-7. Epub 2009 Jan 21. PMID:19164557
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (101 Kb) [Save to disk]
  • Biological Unit Coordinates (3g0f.pdb1.gz) 191 Kb
  • Biological Unit Coordinates (3g0f.pdb2.gz) 97 Kb
  • LPC: Ligand-Protein Contacts for 3G0F
  • CSU: Contacts of Structural Units for 3G0F
  • Likely Quarternary Molecular Structure file(s) for 3G0F
  • Structure Factors (428 Kb)
  • Retrieve 3G0F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3G0F from S2C, [Save to disk]
  • Re-refined 3g0f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3G0F in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3G0F
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3G0F, from MSDmotif at EBI
  • Fold representative 3g0f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3g0f_B] [3g0f_A] [3g0f]
  • SWISS-PROT database: [P10721]
  • Domain organization of [KIT_HUMAN] by SWISSPFAM
  • Domain found in 3G0F: [TyrKc ] by SMART
  • Alignments of the sequence of 3G0F with the sequences similar proteins can be viewed for 3G0F's classification [KIT_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [KIT_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3G0F
  • Community annotation for 3G0F at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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