3G8H Hydrolase date Feb 12, 2009
title Crystal Structure Of Phospholipase A2 Ammodytoxin C From Vip Ammodytes Ammodytes
authors F.A.Saul, G.Faure
compound source
Molecule: Phospholipase A2, Ammodytoxin C
Chain: A
Synonym: Phosphatidylcholine 2-Acylhydrolase
Ec: 3.1.1.4
 Organism_scientific: Vipera Ammodytes Ammodytes
Organism_common: Western Sand Viper
Organism_taxid: 8705
Strain: Northern Balkan
Secretion: Venom
symmetry Space Group: P 3 2 1
R_factor 0.171 R_Free 0.196
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.730 67.730 45.340 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.35 Å
ligand SO4 enzyme Hydrolase E.C.3.1.1.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • toxin activity


    • Primary referenceComparative structural studies of two natural isoforms of ammodytoxin, phospholipases A(2) from Vipera ammodytes ammodytes which differ in neurotoxicity and anticoagulant activity., Saul FA, Prijatelj-Znidarsic P, Vulliez-le Normand B, Villette B, Raynal B, Pungercar J, Krizaj I, Faure G, J Struct Biol. 2009 Oct 24. PMID:19857576
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (28 Kb) [Save to disk]
  • Biological Unit Coordinates (3g8h.pdb1.gz) 48 Kb
  • LPC: Ligand-Protein Contacts for 3G8H
  • CSU: Contacts of Structural Units for 3G8H
  • Structure Factors (421 Kb)
  • Retrieve 3G8H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3G8H from S2C, [Save to disk]
  • Re-refined 3g8h structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3G8H 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 3G8H
  • 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 3G8H, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3g8h] [3g8h_A]
  • SWISS-PROT database: [P11407]
  • Domain organization of [PA2C_VIPAA] by SWISSPFAM
  • Domain found in 3G8H: [PA2c ] by SMART
    • Other resources with information on 3G8H
  • Community annotation for 3G8H 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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