› 1m8s

X-ray diffraction
1.9Å resolution

Crystal Structures of Cadmium-binding Acidic Phospholipase A2 from the Venom of Agkistrodon halys pallas at 1.9 Resolution (crystal grown at pH 5.9)

Released:
DOI: 10.2210/pdb1m8s/pdb
PDB entry 1m8s coloured by chain, front view.
PDB entry 1m8s coloured by chain, side view.
PDB entry 1m8s coloured by chain, top view.
Source organism: Gloydius halys
Primary publication:
Structures of cadmium-binding acidic phospholipase A2 from the venom of Agkistrodon halys Pallas at 1.9A resolution.
Xu S, Gu L, Jiang T, Zhou Y, Lin Z
Biochem Biophys Res Commun 300 271-7 (2003)
PMID: 12504079

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

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128801 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Acidic phospholipase A2 A Chain: A
Molecule details ›
Chain: A
Length: 124 amino acids
Theoretical weight: 13.96 KDa
Source organism: Gloydius halys
UniProt:
  • Canonical: O42191 (Residues: 1-124; Coverage: 100%)
Sequence domains: Phospholipase A2
Structure domains: Phospholipase A2 domain

Ligands and Environments

2 bound ligands:
Ligand CD 1 x CD
Ligand BU1 2 x BU1
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P61
Unit cell:
a: 83.16Å b: 83.16Å c: 32.78Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.202 0.202 0.209

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Citations

1 review citation

Enzymatic toxins from snake venom: structural characterization and mechanism of catalysis.
Kang et al. (2011)
5 other articles

3 mentions without citation

A robust bulk-solvent correction and anisotropic scaling procedure.
Afonine et al. (2005)
2 more