› 1wsf

X-ray diffraction
2.3Å resolution

Co-crystal structure of E.coli RNase HI active site mutant (D134A*) with Mn2+

Released:
DOI: 10.2210/pdb1wsf/pdb
PDB entry 1wsf coloured by chain, front view.
PDB entry 1wsf coloured by chain, side view.
PDB entry 1wsf coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Identification of single Mn(2+) binding sites required for activation of the mutant proteins of E.coli RNase HI at Glu48 and/or Asp134 by X-ray crystallography.
Tsunaka Y, Takano K, Matsumura H, Yamagata Y, Kanaya S
J Mol Biol 345 1171-83 (2005)
PMID: 15644213

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141635 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribonuclease HI Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 155 amino acids
Theoretical weight: 17.52 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A7Y4 (Residues: 1-155; Coverage: 100%)
Gene names: JW0204, b0214, dasF, herA, rnh, rnhA, sdrA
Sequence domains: RNase H
Structure domains: Ribonuclease H-like superfamily/Ribonuclease H

Ligands and Environments

1 bound ligand:
Ligand MN 3 x MN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL44XU
Spacegroup: P21212
Unit cell:
a: 120.99Å b: 80.089Å c: 63.951Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.216 0.216 0.29
Expression system: Escherichia coli

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Citations

5 review citations

Making and breaking nucleic acids: two-Mg2+-ion catalysis and substrate specificity.
Yang et al. (2006)
4 more