› 1wra

X-ray diffraction
2Å resolution

Crystal Structure of Phosphorylcholine Esterase Domain of the Virulence Factor Choline Binding Protein E from Streptococcus Pneumoniae

Released:
DOI: 10.2210/pdb1wra/pdb
PDB entry 1wra coloured by chain, front view.
PDB entry 1wra coloured by chain, side view.
PDB entry 1wra coloured by chain, top view.
Source organism: Streptococcus pneumoniae R6
Primary publication:
Crystal structure of phosphorylcholine esterase domain of the virulence factor choline-binding protein e from streptococcus pneumoniae: new structural features among the metallo-beta-lactamase superfamily.
Garau G, Lemaire D, Vernet T, Dideberg O, Di Guilmi AM
J Biol Chem 280 28591-600 (2005)
PMID: 15908436

Function and Biology Details

Reaction catalysed: 
sn-glycero-3-phosphocholine + H(2)O = glycerol + phosphocholine
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-184149 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Metallo-beta-lactamase domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 308 amino acids
Theoretical weight: 35.05 KDa
Source organism: Streptococcus pneumoniae R6
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8DQ62 (Residues: 27-334; Coverage: 51%)
Gene names: lytD, spr0831
Sequence domains: Metallo-beta-lactamase superfamily
Structure domains: Ribonuclease Z/Hydroxyacylglutathione hydrolase-like

Ligands and Environments

4 bound ligands:
Ligand FE 4 x FE
Ligand CA 4 x CA
Ligand PC 2 x PC
Ligand MPD 11 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ENRAF-NONIUS
Spacegroup: P41212
Unit cell:
a: 98.302Å b: 98.302Å c: 172.6Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.176 0.174 0.204
Expression system: Escherichia coli

Quick links

Citations

10 review citations

Metallo-beta-lactamases (classification, activity, genetic organization, structure, zinc coordination) and their superfamily.
Bebrone C. (2007)
9 more

4 mentions without citation

Choline Binding Proteins from Streptococcus pneumoniae: A Dual Role as Enzybiotics and Targets for the Design of New Antimicrobials.
Maestro et al. (2016)
3 more