1VAP Lipid Degradation date Nov 15, 1996
title The Monomeric Asp49 Secretory Phospholipase A2 From The Venom Of Agkistridon Piscivorus Piscivorus
authors D.L.Scott
compound source
Molecule: Phospholipase A2
Chain: A, B
Ec: 3.1.1.4
Other_details: Secretory Phospholipase A2
Organism_scientific: Agkistrodon Piscivorus Piscivorus
Organism_common: Eastern Cottonmouth
Organism_taxid: 8716
Strain: Piscivorus
symmetry Space Group: P 1
R_factor 0.197 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
34.710 39.890 42.850 94.17 79.10 106.27
method X-Ray Diffractionresolution 1.60 Å
ligand
enzyme Hydrolase E.C.3.1.1.4 BRENDA
related structures by homologous chain: 1Q7A, 1TI0, 1UMV
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural aspects of interfacial adsorption. A crystallographic and site-directed mutagenesis study of the phospholipase A2 from the venom of Agkistrodon piscivorus piscivorus., Han SK, Yoon ET, Scott DL, Sigler PB, Cho W, J Biol Chem 1997 Feb 7;272(6):3573-82. PMID:9013608
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (1vap.pdb1.gz) 22 Kb
  • Biological Unit Coordinates (1vap.pdb2.gz) 22 Kb
  • CSU: Contacts of Structural Units for 1VAP
  • Likely Quarternary Molecular Structure file(s) for 1VAP
  • Retrieve 1VAP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VAP from S2C, [Save to disk]
  • View 1VAP 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 1VAP
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1VAP, from MSDmotif at EBI
  • Genome occurence of 1VAP's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vapa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1vapb_, region B [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vap_A] [1vap] [1vap_B]
  • SWISS-PROT database: [P51972]
  • Domain organization of [PA21_AGKPI] by SWISSPFAM
  • Domain found in 1VAP: [PA2c ] by SMART
  • Other resources with information on 1VAP
  • Community annotation for 1VAP at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1VAP from the Database of Macromolecular Movements.
  • 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