› 1jgm

X-ray diffraction
1.3Å resolution

High Resolution Structure of the Cadmium-containing Phosphotriesterase from Pseudomonas diminuta

Released:
DOI: 10.2210/pdb1jgm/pdb
PDB entry 1jgm coloured by chain, front view.
PDB entry 1jgm coloured by chain, side view.
PDB entry 1jgm coloured by chain, top view.
Source organism: Brevundimonas diminuta
Primary publication:
High resolution X-ray structures of different metal-substituted forms of phosphotriesterase from Pseudomonas diminuta.
Benning MM, Shim H, Raushel FM, Holden HM
Biochemistry 40 2712-22 (2001)
PMID: 11258882

Function and Biology Details

Reaction catalysed: 
An aryl dialkyl phosphate + H(2)O = dialkyl phosphate + an aryl alcohol
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141251 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Parathion hydrolase Chains: A, B
Molecule details ›
Chains: A, B
Length: 336 amino acids
Theoretical weight: 36.38 KDa
Source organism: Brevundimonas diminuta
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A434 (Residues: 30-365; Coverage: 100%)
Gene name: opd
Sequence domains: Phosphotriesterase family
Structure domains: Metal-dependent hydrolases

Ligands and Environments

4 bound ligands:
Ligand CD 4 x CD
Ligand NA 2 x NA
Ligand EDO 27 x EDO
Ligand PEL 3 x PEL
1 modified residue:
Ligand KCX 2 x KCX

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: C2
Unit cell:
a: 128.45Å b: 90.03Å c: 68.39Å
α: 90° β: 91.72° γ: 90°
R-values:
R R work R free
0.204 0.202 0.236
Expression system: Escherichia coli

Quick links

Citations

19 review citations

Microbial degradation of organophosphorus compounds.
Singh et al. (2006)
18 more

2 mentions without citation

Structure of diethyl phosphate bound to the binuclear metal center of phosphotriesterase.
Kim et al. (2008)
1 more