› 5sya

X-ray diffraction
1.1Å resolution

Atomic resolution structure of D24N mutant human DJ-1

Released:
DOI: 10.2210/pdb5sya/pdb
PDB entry 5sya coloured by chain, front view.
PDB entry 5sya coloured by chain, side view.
PDB entry 5sya coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Short Carboxylic Acid-Carboxylate Hydrogen Bonds Can Have Fully Localized Protons.
Lin J, Pozharski E, Wilson MA
Biochemistry 56 391-402 (2017)
PMID: 27989121

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: 192 amino acids
Theoretical weight: 20.23 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q99497 (Residues: 1-189; Coverage: 100%)
Gene name: PARK7
Sequence domains: DJ-1/PfpI family
Structure domains: Rossmann fold

Ligands and Environments

1 bound ligand:
Ligand EDO 2 x EDO
1 modified residue:
Ligand CSD 1 x CSD

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: P3121
Unit cell:
a: 74.969Å b: 74.969Å c: 75.336Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.114 0.113 0.128
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 review citations

Low barrier hydrogen bonds in protein structure and function.
Kemp et al. (2021)
2 more

1 mention without citation

Short Carboxylic Acid-Carboxylate Hydrogen Bonds Can Have Fully Localized Protons.
Lin et al. (2017)