› 1t8q

X-ray diffraction
2Å resolution

Structural genomics, Crystal structure of Glycerophosphoryl diester phosphodiesterase from E. coli

Released:
DOI: 10.2210/pdb1t8q/pdb
PDB entry 1t8q coloured by chain, front view.
PDB entry 1t8q coloured by chain, side view.
PDB entry 1t8q coloured by chain, top view.
Source organism: Escherichia coli
Entry authors: Zhang R, Kim Y, Dementieva I, Duke N, Stols L, Donnelly M, Joachimiak A, Midwest Center for Structural Genomics (MCSG)

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 dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140645 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycerophosphodiester phosphodiesterase, periplasmic Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 336 amino acids
Theoretical weight: 38.94 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P09394 (Residues: 25-358; Coverage: 100%)
Gene names: JW2233, b2239, glpQ
Sequence domains: Glycerophosphoryl diester phosphodiesterase family
Structure domains: Phosphatidylinositol (PI) phosphodiesterase

Ligands and Environments

2 bound ligands:
Ligand MG 4 x MG
Ligand GOL 11 x GOL
1 modified residue:
Ligand MSE 36 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P212121
Unit cell:
a: 62.759Å b: 118.386Å c: 242.048Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.235 0.233 0.265
Expression system: Escherichia coli BL21

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