1Y6B Transferase date Dec 05, 2004
title Crystal Structure Of Vegfr2 In Complex With A 2-Anilino-5-Ar Inhibitor
authors P.A.Harris, M.Cheung, R.N.Hunter, M.L.Brown, J.M.Veal, R.T.Nolte, W.Liu, R.M.Crosby, J.H.Johnson, A.H.Epperly, R.Kumar, D.K.Luttre J.A.Stafford
compound source
Molecule: Vascular Endothelial Growth Factor Receptor 2
Chain: A
Synonym: Vegfr-2, Kinase Insert Domain Receptor, Protein-Ty Kinase Receptor Flk-1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Kdr, Flk1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.192 R_Free 0.236
length a length b length c angle alpha angle beta angle gamma
37.544 94.333 96.767 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand AAX BindingDB enzyme Transferase E.C. BRENDA
related structures by homologous chain: 1Y6A

Primary referenceDiscovery and evaluation of 2-anilino-5-aryloxazoles as a novel class of VEGFR2 kinase inhibitors., Harris PA, Cheung M, Hunter RN 3rd, Brown ML, Veal JM, Nolte RT, Wang L, Liu W, Crosby RM, Johnson JH, Epperly AH, Kumar R, Luttrell DK, Stafford JA, J Med Chem 2005 Mar 10;48(5):1610-9. PMID:15743202
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (1y6b.pdb1.gz) 48 Kb
  • LPC: Ligand-Protein Contacts for 1Y6B
  • CSU: Contacts of Structural Units for 1Y6B
  • Likely Quarternary Molecular Structure file(s) for 1Y6B
  • Structure Factors (189 Kb)
  • Retrieve 1Y6B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y6B from S2C, [Save to disk]
  • Re-refined 1y6b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Y6B 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 1Y6B
  • 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 1Y6B, from MSDmotif at EBI
  • Fold representative 1y6b from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y6b] [1y6b_A]
  • SWISS-PROT database: [P35968]
  • Domain organization of [VGFR2_HUMAN] by SWISSPFAM
  • Domain found in 1Y6B: [TyrKc ] by SMART
  • Other resources with information on 1Y6B
  • Community annotation for 1Y6B 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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