› 2a6r

X-ray diffraction
2.05Å resolution

Crystal structure of YoeB under PEG condition

Released:
DOI: 10.2210/pdb2a6r/pdb
PDB entry 2a6r coloured by chain, front view.
PDB entry 2a6r coloured by chain, side view.
PDB entry 2a6r coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Conformational change in the catalytic site of the ribonuclease YoeB toxin by YefM antitoxin.
Kamada K, Hanaoka F
Mol Cell 19 497-509 (2005)
PMID: 16109374

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-159576 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Toxin YoeB Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 84 amino acids
Theoretical weight: 10.23 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P69348 (Residues: 1-84; Coverage: 100%)
Gene names: JW5331, b4539, yoeB
Sequence domains: YoeB-like toxin of bacterial type II toxin-antitoxin system
Structure domains: RelE-like

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: C2
Unit cell:
a: 163.898Å b: 43.138Å c: 89.367Å
α: 90° β: 118.49° γ: 90°
R-values:
R R work R free
0.2 0.196 0.229
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

29 review citations

Toxin-antitoxin systems in bacteria and archaea.
Yamaguchi et al. (2011)
28 more

4 mentions without citation

Structural analysis of hypothetical proteins from Helicobacter pylori: an approach to estimate functions of unknown or hypothetical proteins.
Park et al. (2012)
3 more