› 4xww

X-ray diffraction
1.7Å resolution

Crystal structure of RNase J complexed with RNA

Released:
DOI: 10.2210/pdb4xww/pdb
PDB entry 4xww coloured by chain, front view.
PDB entry 4xww coloured by chain, side view.
PDB entry 4xww coloured by chain, top view.
Source organisms:
Primary publication:
Structural insights into catalysis and dimerization enhanced exonuclease activity of RNase J.
Zhao Y, Lu M, Zhang H, Hu J, Zhou C, Xu Q, Ul Hussain Shah AM, Xu H, Wang L, Hua Y
OpenAccess logo Nucleic Acids Res 43 5550-9 (2015)
PMID: 25940620

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-124926 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Ribonuclease J Chains: A, B
Molecule details ›
Chains: A, B
Length: 559 amino acids
Theoretical weight: 61.7 KDa
Source organism: Deinococcus radiodurans
Expression system: Escherichia coli
UniProt:
  • Canonical: H9CZL7 (Residues: 1-559; Coverage: 100%)
Gene name: rnj
Sequence domains:
Structure domains:
RNA (5'-D(UP*UP*UP*UP*UP*UP*U)-3') Chains: D, E
Molecule details ›
Chains: D, E
Length: 7 nucleotides
Theoretical weight: 2.1 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand ZN 4 x ZN
Ligand MN 2 x MN
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P212121
Unit cell:
a: 67.12Å b: 87.86Å c: 249.4Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.195 0.217
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

5 review citations

Conservation and diversity of radiation and oxidative stress resistance mechanisms in Deinococcus species.
Lim et al. (2019)
4 more

6 mentions without citation

Isoform-specific monoubiquitination, endocytosis, and degradation of alternatively spliced ErbB4 isoforms.
Sundvall et al. (2008)
5 more