› 5wzt

X-ray diffraction
2.4Å resolution

Crystal structure of human secreted phospholipase A2 group IIE with Compound 14

Released:
DOI: 10.2210/pdb5wzt/pdb
PDB entry 5wzt coloured by chain, front view.
PDB entry 5wzt coloured by chain, side view.
PDB entry 5wzt coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for functional selectivity and ligand recognition revealed by crystal structures of human secreted phospholipase A2 group IIE.
Hou S, Xu T, Xu J, Qu L, Xu Y, Chen L, Liu J
Sci Rep 7 10815 (2017)
PMID: 28883454

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192760 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Group IIE secretory phospholipase A2 Chain: A
Molecule details ›
Chain: A
Length: 123 amino acids
Theoretical weight: 13.99 KDa
Source organism: Homo sapiens
Expression system: Komagataella pastoris
UniProt:
  • Canonical: Q9NZK7 (Residues: 20-142; Coverage: 100%)
Gene name: PLA2G2E
Sequence domains: Phospholipase A2
Structure domains: Phospholipase A2 domain

Ligands and Environments

4 bound ligands:
Ligand CA 1 x CA
Ligand GOL 1 x GOL
Ligand DMS 1 x DMS
Ligand 7W6 1 x 7W6
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: OXFORD DIFFRACTION ENHANCE ULTRA
Unit cell:
a: 48.93Å b: 60.676Å c: 63.379Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.221 0.219 0.267
Expression system: Komagataella pastoris

Quick links

Citations

3 review citations

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

1 mention without citation

Structural basis for functional selectivity and ligand recognition revealed by crystal structures of human secreted phospholipase A2 group IIE.
Hou et al. (2017)