› 3vj7

X-ray diffraction
2.3Å resolution

Crystal structure of the carboxy-terminal ribonuclease domain of Colicin E5 R33Q mutant

Released:
DOI: 10.2210/pdb3vj7/pdb
PDB entry 3vj7 coloured by chain, front view.
PDB entry 3vj7 coloured by chain, side view.
PDB entry 3vj7 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Identification of the catalytic residues of sequence-specific and histidine-free ribonuclease colicin E5.
Inoue-Ito S, Yajima S, Fushinobu S, Nakamura S, Ogawa T, Hidaka M, Masaki H
J Biochem 152 365-72 (2012)
PMID: 22815490

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-148241 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Colicin-E5 Chain: A
Molecule details ›
Chain: A
Length: 115 amino acids
Theoretical weight: 12.69 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P18000 (Residues: 66-180; Coverage: 64%)
Gene name: col
Sequence domains: Colicin E5 ribonuclease domain
Structure domains: YaeB-like fold

Ligands and Environments

2 bound ligands:
Ligand 3PD 1 x 3PD
Ligand UM3 1 x UM3
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: MACSCIENCE
Spacegroup: P212121
Unit cell:
a: 29.688Å b: 49.45Å c: 64.619Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.239 0.238 0.257
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Generation of 2',3'-Cyclic Phosphate-Containing RNAs as a Hidden Layer of the Transcriptome.
Shigematsu et al. (2018)
1 more