2Q2J Toxin date May 28, 2007
title Crystal Structure Of Prtx-I, A Pla2 Homolog From Bothrops Pirajai
authors J.I.Dos Santos, M.R.Fontes
compound source
Molecule: Phospholipase A2 Homolog 1
Chain: A, B
Synonym: Piratoxin-I, Prtx-I, Myotoxin Siv-Sp5
Organism_scientific: Bothrops Pirajai
Organism_common: Snake
Organism_taxid: 113192
symmetry Space Group: P 31 2 1
R_factor 0.214 R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.883 55.883 127.913 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.65 Å
ligand SO4, TRS enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • toxin activity


  • Primary referenceComparative structural studies on Lys49-phospholipases A(2) from Bothrops genus reveal their myotoxic site., dos Santos JI, Soares AM, Fontes MR, J Struct Biol. 2009 Aug;167(2):106-16. Epub 2009 May 3. PMID:19401234
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • Biological Unit Coordinates (2q2j.pdb1.gz) 47 Kb
  • LPC: Ligand-Protein Contacts for 2Q2J
  • CSU: Contacts of Structural Units for 2Q2J
  • Likely Quarternary Molecular Structure file(s) for 2Q2J
  • Structure Factors (189 Kb)
  • Retrieve 2Q2J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Q2J from S2C, [Save to disk]
  • Re-refined 2q2j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Q2J 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 2Q2J
  • 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 2Q2J, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2q2j_A] [2q2j] [2q2j_B]
  • SWISS-PROT database: [P82287]
  • Domain organization of [PA22_BOTPI] by SWISSPFAM
  • Domain found in 2Q2J: [PA2c ] by SMART
  • Other resources with information on 2Q2J
  • Community annotation for 2Q2J 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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