› 1jq9

X-ray diffraction
1.8Å resolution

Crystal structure of a complex formed between phospholipase A2 from Daboia russelli pulchella and a designed pentapeptide Phe-Leu-Ser-Tyr-Lys at 1.8 resolution

Released:
DOI: 10.2210/pdb1jq9/pdb
PDB entry 1jq9 coloured by chain, front view.
PDB entry 1jq9 coloured by chain, side view.
PDB entry 1jq9 coloured by chain, top view.
Source organism: Daboia russelii pulchella
Primary publication:
Crystal structure of a complex formed between a snake venom phospholipase A(2) and a potent peptide inhibitor Phe-Leu-Ser-Tyr-Lys at 1.8 A resolution.
Chandra V, Jasti J, Kaur P, Dey S, Perbandt M, Srinivasan A, Betzel Ch, Singh TP
J Biol Chem 277 41079-85 (2002)
PMID: 12186870

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:
hetero dimer (preferred)
monomeric
hetero trimer
Assembly name:
PDBe Complex ID:
PDB-CPX-157749 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Basic phospholipase A2 VRV-PL-VIIIa Chains: A, B
Molecule details ›
Chains: A, B
Length: 121 amino acids
Theoretical weight: 13.63 KDa
Source organism: Daboia russelii pulchella
UniProt:
  • Canonical: P59071 (Residues: 1-121; Coverage: 100%)
Sequence domains: Phospholipase A2
Structure domains: Phospholipase A2 domain
Peptide inhibitor Chain: P
Molecule details ›
Chain: P
Length: 5 amino acids
Theoretical weight: 658 Da
Source organism: Daboia russelii pulchella
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ACY 4 x ACY
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: C2221
Unit cell:
a: 76.13Å b: 89.161Å c: 77.548Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.21 0.205 0.225
Expression system: Not provided

Quick links

Citations

2 review citations

Enzymatic toxins from snake venom: structural characterization and mechanism of catalysis.
Kang et al. (2011)
1 more

5 mentions without citation

Structural and Functional Aspects of Targeting the Secreted Human Group IIA Phospholipase A2.
Kim et al. (2020)
4 more