› 4m30

X-ray diffraction
2.5Å resolution

Crystal structure of RNASE III complexed with double-stranded RNA AND AMP (TYPE II CLEAVAGE)

Released:
DOI: 10.2210/pdb4m30/pdb
PDB entry 4m30 coloured by chain, front view.
PDB entry 4m30 coloured by chain, side view.
PDB entry 4m30 coloured by chain, top view.
Source organism: Aquifex aeolicus VF5
Primary publication:
RNase III: Genetics and function; structure and mechanism.
Court DL, Gan J, Liang YH, Shaw GX, Tropea JE, Costantino N, Waugh DS, Ji X
Annu Rev Genet 47 405-31 (2013)
PMID: 24274754

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage to 5'-phosphomonoester.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-130440 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Ribonuclease 3 Chains: A, B
Molecule details ›
Chains: A, B
Length: 221 amino acids
Theoretical weight: 26.15 KDa
Source organism: Aquifex aeolicus VF5
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O67082 (Residues: 1-221; Coverage: 100%)
Gene names: aq_946, rnc
Sequence domains:
Structure domains:
RNA12 Chains: C, D
Molecule details ›
Chains: C, D
Length: 27 nucleotides
Theoretical weight: 8.65 KDa
Source organism: Aquifex aeolicus VF5
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand MG 9 x MG
Ligand MPD 1 x MPD
Ligand AMP 2 x AMP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P3221
Unit cell:
a: 81.104Å b: 81.104Å c: 223.962Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.2 0.198 0.261
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

18 review citations

Comparative Structure and Function Analysis of the RIG-I-Like Receptors: RIG-I and MDA5.
Brisse et al. (2019)
17 more

2 mentions without citation

Rtr1 is a dual specificity phosphatase that dephosphorylates Tyr1 and Ser5 on the RNA polymerase II CTD.
Hsu et al. (2014)
1 more