› 2dxl

X-ray diffraction
3Å resolution

Glycerophosphodiesterase from Enterobacter aerogenes

Released:
DOI: 10.2210/pdb2dxl/pdb
PDB entry 2dxl coloured by chain, front view.
PDB entry 2dxl coloured by chain, side view.
PDB entry 2dxl coloured by chain, top view.
Source organism: Klebsiella aerogenes
Primary publication:
The structure and function of a novel glycerophosphodiesterase from Enterobacter aerogenes.
Jackson CJ, Carr PD, Liu JW, Watt SJ, Beck JL, Ollis DL
J Mol Biol 367 1047-62 (2007)
PMID: 17306828

Function and Biology Details

Reaction catalysed: 
A glycerophosphodiester + H(2)O = an alcohol + sn-glycerol 3-phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-180520 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycerophosphodiester phosphodiesterase GpdQ Chains: A, B
Molecule details ›
Chains: A, B
Length: 274 amino acids
Theoretical weight: 30.83 KDa
Source organism: Klebsiella aerogenes
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6XBH1 (Residues: 1-274; Coverage: 100%)
Gene names: gpdQ, ph
Sequence domains: Calcineurin-like phosphoesterase
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand CO 4 x CO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P213
Unit cell:
a: 164.462Å b: 164.462Å c: 164.462Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.16 0.158 0.194
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Efficient, crosswise catalytic promiscuity among enzymes that catalyze phosphoryl transfer.
Mohamed et al. (2013)
6 more

1 mention without citation

Substrate-promoted formation of a catalytically competent binuclear center and regulation of reactivity in a glycerophosphodiesterase from Enterobacter aerogenes.
Hadler et al. (2008)