› 1pt3

X-ray diffraction
2.5Å resolution

Crystal structures of nuclease-ColE7 complexed with octamer DNA

Released:
DOI: 10.2210/pdb1pt3/pdb
PDB entry 1pt3 coloured by chain, front view.
PDB entry 1pt3 coloured by chain, side view.
PDB entry 1pt3 coloured by chain, top view.
Source organism: Escherichia coli str. K-12 substr. W3110
Primary publication:
DNA binding and degradation by the HNH protein ColE7.
Hsia KC, Chak KF, Liang PH, Cheng YS, Ku WY, Yuan HS
Structure 12 205-14 (2004)
PMID: 14962381

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114404 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Colicin-E7 Chains: A, B
Molecule details ›
Chains: A, B
Length: 128 amino acids
Theoretical weight: 14.66 KDa
Source organism: Escherichia coli str. K-12 substr. W3110
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'-GCGATCGC-3' Chains: C, D, E, F, G, H
Molecule details ›
Chains: C, D, E, F, G, H
Length: 8 nucleotides
Theoretical weight: 2.43 KDa
Source organism: Escherichia coli str. K-12 substr. W3110
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL12B2
Spacegroup: P21
Unit cell:
a: 59.43Å b: 46.47Å c: 78.45Å
α: 90° β: 90.39° γ: 90°
R-values:
R R work R free
0.216 0.216 0.289
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

3 review citations

Colicin biology.
Cascales et al. (2007)
2 more

5 mentions without citation

A protein-DNA docking benchmark.
van Dijk et al. (2008)
4 more