› 2ivh

X-ray diffraction
2.8Å resolution

Crystal structure of the nuclease domain of ColE7 (H545Q mutant) in complex with an 18-bp duplex DNA

Released:
DOI: 10.2210/pdb2ivh/pdb
PDB entry 2ivh coloured by chain, front view.
PDB entry 2ivh coloured by chain, side view.
PDB entry 2ivh coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structural basis for sequence-dependent DNA cleavage by nonspecific endonucleases.
Wang YT, Yang WJ, Li CL, Doudeva LG, Yuan HS
Nucleic Acids Res 35 584-94 (2007)
PMID: 17175542

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115415 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Colicin-E7 Chain: A
Molecule details ›
Chain: A
Length: 128 amino acids
Theoretical weight: 14.65 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: Q47112 (Residues: 449-576; Coverage: 22%)
Gene names: cea, colE7
Sequence domains: Colicin/Pyocin-S2, DNase domain
Structure domains: Colicin/pyocin, DNase domain
5'-D(*GP*GP*AP*AP*TP*TP*CP*GP*AP*TP *CP*GP*AP*AP*TP*TP*CP*C)-3' Chains: B, C
Molecule details ›
Chains: B, C
Length: 18 nucleotides
Theoretical weight: 5.52 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 1 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P41212
Unit cell:
a: 106.8Å b: 106.8Å c: 60.2Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.193 0.193 0.265
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

Nucleases: diversity of structure, function and mechanism.
Yang W. (2011)
22 other articles

3 mentions without citation

Crystal structure of the chromodomain helicase DNA-binding protein 1 (Chd1) DNA-binding domain in complex with DNA.
Sharma et al. (2011)
2 more