2PH4 Toxin date Apr 10, 2007
title Crystal Structure Of A Novel Arg49 Phospholipase A2 Homologu Zhaoermia Mangshanensis Venom
authors M.T.Murakami, U.Kuch, D.Mebs, R.K.Arni
compound source
Molecule: Zhaoermiatoxin
Chain: A, B
Synonym: Phospholipase A2 Homolog
Organism_scientific: Zhaoermia Mangshanensis
Organism_taxid: 242058
Secretion: Venom
symmetry Space Group: P 64
R_factor 0.209 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.933 72.933 93.938 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.05 Å
ligand PEG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • toxin activity


  • Primary referenceCrystal structure of a novel myotoxic Arg49 phospholipase A(2) homolog (zhaoermiatoxin) from Zhaoermia mangshanensis snake venom: Insights into Arg49 coordination and the role of Lys122 in the polarization of the C-terminus., Murakami MT, Kuch U, Betzel C, Mebs D, Arni RK, Toxicon. 2008 Apr;51(5):723-35. Epub 2007 Nov 29. PMID:18295812
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (50 Kb) [Save to disk]
  • Biological Unit Coordinates (2ph4.pdb1.gz) 44 Kb
  • Biological Unit Coordinates (2ph4.pdb2.gz) 87 Kb
  • LPC: Ligand-Protein Contacts for 2PH4
  • CSU: Contacts of Structural Units for 2PH4
  • Likely Quarternary Molecular Structure file(s) for 2PH4
  • Structure Factors (266 Kb)
  • Retrieve 2PH4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PH4 from S2C, [Save to disk]
  • Re-refined 2ph4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2PH4 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 2PH4
  • 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 2PH4, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ph4] [2ph4_B] [2ph4_A]
  • SWISS-PROT database: [P84776]
  • Domain organization of [PA2H_ZHAMA] by SWISSPFAM
  • Domain found in 2PH4: [PA2c ] by SMART
  • Other resources with information on 2PH4
  • Community annotation for 2PH4 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • 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