› 1iyi

X-ray diffraction
1.8Å resolution

Crystal structure of hematopoietic prostaglandin D synthase

Released:
DOI: 10.2210/pdb1iyi/pdb
PDB entry 1iyi coloured by chain, front view.
PDB entry 1iyi coloured by chain, side view.
PDB entry 1iyi coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Mechanism of metal activation of human hematopoietic prostaglandin D synthase.
Inoue T, Irikura D, Okazaki N, Kinugasa S, Matsumura H, Uodome N, Yamamoto M, Kumasaka T, Miyano M, Kai Y, Urade Y
Nat Struct Biol 10 291-6 (2003)
PMID: 12627223

Function and Biology Details

Reactions catalysed: 
RX + glutathione = HX + R-S-glutathione
(5Z,13E,15S)-9-alpha,11-alpha-epidioxy-15-hydroxyprosta-5,13-dienoate = (5Z,13E,15S)-9-alpha,15-dihydroxy-11-oxoprosta-5,13-dienoate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-130086 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Hematopoietic prostaglandin D synthase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 198 amino acids
Theoretical weight: 23.26 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O60760 (Residues: 2-199; Coverage: 100%)
Gene names: GSTS, HPGDS, PGDS, PTGDS2
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand GSH 4 x GSH
1 bound ligand:
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P21
Unit cell:
a: 48.784Å b: 47.263Å c: 183.81Å
α: 90° β: 97.83° γ: 90°
R-values:
R R work R free
0.188 0.188 0.22
Expression system: Escherichia coli

Quick links

Citations

15 review citations

Glutathione catalysis and the reaction mechanisms of glutathione-dependent enzymes.
Deponte M. (2013)
14 more

7 mentions without citation

Enzymes of the cyclooxygenase pathways of prostanoid biosynthesis.
Smith et al. (2011)
6 more