› 2ix0

X-ray diffraction
2.44Å resolution

RNase II

Released:
DOI: 10.2210/pdb2ix0/pdb
Model geometry
Fit model/data
PDB entry 2ix0 coloured by chain, front view.
PDB entry 2ix0 coloured by chain, side view.
PDB entry 2ix0 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Unravelling the dynamics of RNA degradation by ribonuclease II and its RNA-bound complex.
Frazão C, McVey CE, Amblar M, Barbas A, Vonrhein C, Arraiano CM, Carrondo MA
Nature 443 110-4 (2006)
PMID: 16957732

Function and Biology Details

Reaction catalysed: 
Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-151826 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Exoribonuclease 2 Chain: A
Molecule details ›
Chain: A
Length: 663 amino acids
Theoretical weight: 74.6 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P30850 (Residues: 4-644; Coverage: 100%)
Gene names: JW1279, b1286, rnb
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand C5P 1 x C5P
Ligand MG 1 x MG
Ligand CA 1 x CA
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ESRF BEAMLINE ID13
Spacegroup: P21
Unit cell:
a: 56.836Å b: 125.719Å c: 66.244Å
α: 90° β: 111.91° γ: 90°
R-values:
R R work R free
0.19 0.187 0.236
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

38 review citations

RNA-binding proteins: modular design for efficient function.
Lunde et al. (2007)
37 more

7 mentions without citation

Architecture of the yeast Rrp44 exosome complex suggests routes of RNA recruitment for 3' end processing.
Wang et al. (2007)
6 more