› 2cbn

X-ray diffraction
2.9Å resolution

Crystal structure of ZipD from Escherichia coli

Released:
DOI: 10.2210/pdb2cbn/pdb
PDB entry 2cbn coloured by chain, front view.
PDB entry 2cbn coloured by chain, side view.
PDB entry 2cbn coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
The crystal structure of the zinc phosphodiesterase from Escherichia coli provides insight into function and cooperativity of tRNase Z-family proteins.
Kostelecky B, Pohl E, Vogel A, Schilling O, Meyer-Klaucke W
J Bacteriol 188 1607-14 (2006)
PMID: 16452444

Function and Biology Details

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-141747 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribonuclease BN Chain: A
Molecule details ›
Chain: A
Length: 306 amino acids
Theoretical weight: 32.97 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A8V0 (Residues: 1-305; Coverage: 100%)
Gene names: JW2263, b2268, elaC, rbn, rnz
Sequence domains: Beta-lactamase superfamily domain
Structure domains: Ribonuclease Z/Hydroxyacylglutathione hydrolase-like

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P6422
Unit cell:
a: 147.2Å b: 147.2Å c: 138.2Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.23 0.23 0.25
Expression system: Escherichia coli

Quick links

Citations

8 review citations

tRNA biology charges to the front.
Phizicky et al. (2010)
7 more

9 mentions without citation

Metallo-β-lactamases in the Age of Multidrug Resistance: From Structure and Mechanism to Evolution, Dissemination, and Inhibitor Design.
Bahr et al. (2021)
8 more