› 1zl7

X-ray diffraction
1.6Å resolution

Crystal structure of catalytically-active phospholipase A2 with bound calcium

Released:
DOI: 10.2210/pdb1zl7/pdb
PDB entry 1zl7 coloured by chain, front view.
PDB entry 1zl7 coloured by chain, side view.
PDB entry 1zl7 coloured by chain, top view.
Source organism: Bothrops jararacussu
Primary publication:
Insights into metal ion binding in phospholipases A2: ultra high-resolution crystal structures of an acidic phospholipase A2 in the Ca2+ free and bound states.
Murakami MT, Gabdoulkhakov A, Genov N, Cintra AC, Betzel C, Arni RK
Biochimie 88 543-9 (2006)
PMID: 16376474

Function and Biology Details

Reaction catalysed: 
Phosphatidylcholine + H(2)O = 1-acylglycerophosphocholine + a carboxylate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-183823 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Acidic phospholipase A2 BthA-1 Chain: A
Molecule details ›
Chain: A
Length: 122 amino acids
Theoretical weight: 13.7 KDa
Source organism: Bothrops jararacussu
UniProt:
  • Canonical: Q8AXY1 (Residues: 17-138; Coverage: 100%)
Sequence domains: Phospholipase A2
Structure domains: Phospholipase A2 domain

Ligands and Environments

2 bound ligands:
Ligand CA 1 x CA
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: LNLS BEAMLINE D03B-MX1
Spacegroup: C2221
Unit cell:
a: 39.206Å b: 53.218Å c: 90.057Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.205 0.176 0.232

Quick links

Citations

1 review citation

Secreted Phospholipases A₂ from Animal Venoms in Pain and Analgesia.
Zambelli et al. (2017)
8 other articles

1 mention without citation

Independent Recruitment of Different Types of Phospholipases A2 to the Venoms of Caenophidian Snakes: The Rise of PLA2-IIE within Pseudoboini (Dipsadidae).
Bayona-Serrano et al. (2023)