1WQ8 Toxin date Sep 23, 2004
title Crystal Structure Of Vammin, A Vegf-F From A Snake Venom
authors K.Suto, Y.Yamazaki, T.Morita, H.Mizuno
compound source
Molecule: Vascular Endothelial Growth Factor Toxin
Chain: A
Synonym: Vr-1, Vegf-F
 Organism_scientific: Vipera Aspis Aspis
Organism_taxid: 194601
Strain: Aspis
Secretion: Venom
symmetry Space Group: I 4 2 2
R_factor 0.192 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
85.526 85.526 86.365 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand PCA, TRS enzyme
related structures by homologous chain: 1WQ9
Gene
Ontology
ChainFunctionProcessComponent
A
  • growth factor activity
  • toxin activity


    • Primary referenceCrystal structures of novel VEGFs from snake venoms., Suto K, Yamazaki Y, Morita T, Mizuno H, J Biol Chem 2004 Nov 12;. PMID:15542594
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (25 Kb) [Save to disk]
  • Biological Unit Coordinates (1wq8.pdb1.gz) 39 Kb
  • Biological Unit Coordinates (1wq8.pdb2.gz) 153 Kb
  • LPC: Ligand-Protein Contacts for 1WQ8
  • CSU: Contacts of Structural Units for 1WQ8
  • Likely Quarternary Molecular Structure file(s) for 1WQ8
  • Structure Factors (102 Kb)
  • Retrieve 1WQ8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1WQ8 from S2C, [Save to disk]
  • Re-refined 1wq8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1WQ8 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 1WQ8
  • 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 1WQ8, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1wq8a_, region A [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1wq8] [1wq8_A]
  • SWISS-PROT database: [P67863]
  • Domain organization of [TXVE_VIPAA] by SWISSPFAM
  • Domain found in 1WQ8: [PDGF ] by SMART
    • Other resources with information on 1WQ8
  • Community annotation for 1WQ8 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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