2H4C Hydrolase date May 24, 2006
title Structure Of Daboiatoxin (Heterodimeric Pla2 Venom)
authors G.Gopalan, M.M.Thwin, P.Gopalakrishnakone, K.Swaminathan
compound source
Molecule: Phospholipase A2-III
Chain: A, C, E, G
Fragment: Residues 1-133
Synonym: Acidic Phospholipase A2
Ec: 3.1.1.4
Organism_scientific: Daboia Russellii Siamensis
Organism_taxid: 343250
Strain: Siamensis
Secretion: Venom

Molecule: Phospholipase A2-II
Chain: B, D, F, H
Fragment: Residues 1-133
Synonym: Basic Phospholipase A2
Ec: 3.1.1.4

Organism_scientific: Daboia Russellii Siamensis
Organism_taxid: 343250
Strain: Siamensis
Secretion: Venom
symmetry Space Group: P 32
R_factor 0.220 R_Free 0.307
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.977 66.977 240.273 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
ligand
enzyme Hydrolase E.C.3.1.1.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, E, C, G
  • phospholipase A2 inhibitor a...
  • toxin activity


  • F, B, H, D
  • toxin activity


  • Primary referenceStructural and pharmacological comparison of daboiatoxin from Daboia russelli siamensis with viperotoxin F and vipoxin from other vipers., Gopalan G, Thwin MM, Gopalakrishnakone P, Swaminathan K, Acta Crystallogr D Biol Crystallogr. 2007 Jun;63(Pt 6):722-9. Epub 2007, May 15. PMID:17505111
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (161 Kb) [Save to disk]
  • Biological Unit Coordinates (2h4c.pdb1.gz) 40 Kb
  • Biological Unit Coordinates (2h4c.pdb2.gz) 41 Kb
  • Biological Unit Coordinates (2h4c.pdb3.gz) 41 Kb
  • Biological Unit Coordinates (2h4c.pdb4.gz) 40 Kb
  • Biological Unit Coordinates (2h4c.pdb5.gz) 80 Kb
  • Biological Unit Coordinates (2h4c.pdb6.gz) 78 Kb
  • CSU: Contacts of Structural Units for 2H4C
  • Likely Quarternary Molecular Structure file(s) for 2H4C
  • Structure Factors (249 Kb)
  • Retrieve 2H4C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2H4C from S2C, [Save to disk]
  • Re-refined 2h4c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2H4C 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 2H4C
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2H4C, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2h4c_F] [2h4c_A] [2h4c_D] [2h4c_H] [2h4c_G] [2h4c_E] [2h4c] [2h4c_C] [2h4c_B]
  • SWISS-PROT database: [Q7T2R1] [Q7T3T5]
  • Domain organization of [Q7T2R1_DABRU] [Q7T3T5_DABRU] by SWISSPFAM
  • Domain found in 2H4C: [PA2c ] by SMART
  • Other resources with information on 2H4C
  • Community annotation for 2H4C 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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