› 1znv

X-ray diffraction
2Å resolution

How a His-metal finger endonuclease ColE7 binds and cleaves DNA with a transition metal ion cofactor

Released:
DOI: 10.2210/pdb1znv/pdb
PDB entry 1znv coloured by chain, front view.
PDB entry 1znv coloured by chain, side view.
PDB entry 1znv coloured by chain, top view.
Source organism: Escherichia coli str. K-12 substr. W3110
Primary publication:
Crystal structural analysis and metal-dependent stability and activity studies of the ColE7 endonuclease domain in complex with DNA/Zn2+ or inhibitor/Ni2+.
Doudeva LG, Huang H, Hsia KC, Shi Z, Li CL, Shen Y, Cheng YS, Yuan HS
Protein Sci 15 269-80 (2006)
PMID: 16434744

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-169934 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Colicin-E7 immunity protein Chains: A, C
Molecule details ›
Chains: A, C
Length: 93 amino acids
Theoretical weight: 10.74 KDa
Source organism: Escherichia coli str. K-12 substr. W3110
Expression system: Escherichia coli
UniProt:
  • Canonical: Q03708 (Residues: 1-87; Coverage: 100%)
Gene names: ceiE7, imm
Sequence domains: Colicin immunity protein / pyocin immunity protein
Structure domains: Colicin E immunity protein
Colicin-E7 Chains: B, D
Molecule details ›
Chains: B, D
Length: 134 amino acids
Theoretical weight: 15.4 KDa
Source organism: Escherichia coli str. K-12 substr. W3110
Expression system: Escherichia coli
UniProt:
  • Canonical: Q47112 (Residues: 444-576; Coverage: 23%)
Gene names: cea, colE7
Sequence domains: Colicin/Pyocin-S2, DNase domain
Structure domains: Colicin/pyocin, DNase domain

Ligands and Environments

2 bound ligands:
Ligand NI 2 x NI
Ligand PO4 2 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL12B2
Spacegroup: P21212
Unit cell:
a: 119.021Å b: 62.882Å c: 74.769Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.188 0.235
Expression system: Escherichia coli

Quick links

Citations

3 review citations

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

3 mentions without citation

Crystal structural analysis and metal-dependent stability and activity studies of the ColE7 endonuclease domain in complex with DNA/Zn2+ or inhibitor/Ni2+.
Doudeva et al. (2006)
2 more