4AGC Transferase date Jan 26, 2012
title Crystal Structure Of Vegfr2 (Juxtamembrane And Kinase Domain Complex With Axitinib (Ag-013736) (N-Methyl-2-(3-((E)-2-Pyr Vinyl)-1h-Indazol-6-Ylsulfanyl)-Benzamide)
authors M.Mctigue, Y.Deng, K.Ryan, A.Brooun, W.Diehl, R.S.Kania
compound source
Molecule: Vascular Endothelial Growth Factor Receptor 2
Chain: A
Fragment: Juxtamembrane And Kinase Domains, Residues 787-93 1171;
Synonym: Vegfr-2, Fetal Liver Kinase 1, Flk-1, Kinase Inser Receptor, Kdr, Protein-Tyrosine Kinase Receptor Flk-1, Cd30
Ec: 2.7.10.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pfastbac
symmetry Space Group: C 1 2 1
R_factor 0.204 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
139.492 56.922 50.787 90.00 97.12 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand AXI enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceFeature Article: Molecular conformations, interactions, and properties associated with drug efficiency and clinical performance among VEGFR TK inhibitors., McTigue M, Murray BW, Chen JH, Deng YL, Solowiej J, Kania RS, Proc Natl Acad Sci U S A. 2012 Sep 17. PMID:22988103
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]
  • Biological Unit Coordinates (4agc.pdb1.gz) 53 Kb
  • LPC: Ligand-Protein Contacts for 4AGC
  • CSU: Contacts of Structural Units for 4AGC
  • Structure Factors (329 Kb)
  • Retrieve 4AGC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4AGC from S2C, [Save to disk]
  • Re-refined 4agc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4AGC 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 4AGC
  • 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
  • 3D motif for 4AGC, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4agc_A] [4agc]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4AGC: [TyrKc ] by SMART
  • Other resources with information on 4AGC
  • Community annotation for 4AGC at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science