› 4ogf

X-ray diffraction
1.6Å resolution

Crystal Structure of Human DJ-1 with glyoxylate as substrate analog

Released:
DOI: 10.2210/pdb4ogf/pdb
PDB entry 4ogf coloured by chain, front view.
PDB entry 4ogf coloured by chain, side view.
PDB entry 4ogf coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Stereospecific mechanism of DJ-1 glyoxalases inferred from their hemithioacetal-containing crystal structures.
Choi D, Kim J, Ha S, Kwon K, Kim EH, Lee HY, Ryu KS, Park C
FEBS J 281 5447-62 (2014)
PMID: 25283443

Function and Biology Details

Reaction catalysed: 
An N(6)-(1-hydroxy-2-oxopropyl)-[protein]-L-lysine + H(2)O = a [protein]-L-lysine + lactate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-189207 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Parkinson disease protein 7 Chain: A
Molecule details ›
Chain: A
Length: 187 amino acids
Theoretical weight: 19.74 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q99497 (Residues: 2-188; Coverage: 99%)
Gene name: PARK7
Sequence domains: DJ-1/PfpI family
Structure domains: Rossmann fold

Ligands and Environments

No bound ligands
1 modified residue:
Ligand CGV 1 x CGV

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P3121
Unit cell:
a: 74.692Å b: 74.692Å c: 74.937Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.212 0.212 0.235
Expression system: Escherichia coli

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Citations

4 review citations

D-Lactic Acid as a Metabolite: Toxicology, Diagnosis, and Detection.
Pohanka M. (2020)
3 more

3 mentions without citation

Stereospecific mechanism of DJ-1 glyoxalases inferred from their hemithioacetal-containing crystal structures.
Choi et al. (2014)
2 more