› 2fkc

X-ray diffraction
2.39Å resolution

Crystal Form I of Pre-Reactive Complex of Restriction Endonuclease HinP1I with Cognate DNA and Calcium Ion

Released:
DOI: 10.2210/pdb2fkc/pdb
PDB entry 2fkc coloured by chain, front view.
PDB entry 2fkc coloured by chain, side view.
PDB entry 2fkc coloured by chain, top view.
Source organism: Haemophilus influenzae
Primary publication:
DNA nicking by HinP1I endonuclease: bending, base flipping and minor groove expansion.
Horton JR, Zhang X, Maunus R, Yang Z, Wilson GG, Roberts RJ, Cheng X
OpenAccess logo Nucleic Acids Res 34 939-48 (2006)
PMID: 16473850

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115263 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
R.HinP1I restriction endonuclease Chains: A, B
Molecule details ›
Chains: A, B
Length: 247 amino acids
Theoretical weight: 28.79 KDa
Source organism: Haemophilus influenzae
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5I6E6 (Residues: 1-247; Coverage: 100%)
Gene name: hinP1IR
Sequence domains: R.HinP1I restriction endonuclease
Structure domains: Trna Endonuclease; Chain: A, domain 1
5'-D(*CP*CP*AP*GP*CP*GP*CP*TP*GP*G)-3' Chains: C, D, E, F
Molecule details ›
Chains: C, D, E, F
Length: 10 nucleotides
Theoretical weight: 3.05 KDa
Source organism: Haemophilus influenzae
Expression system: Not provided

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P3221
Unit cell:
a: 105.104Å b: 105.104Å c: 130.36Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.227 0.222 0.26
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

CRISPR-mediated adaptive immune systems in bacteria and archaea.
Sorek et al. (2013)
29 other articles

5 mentions without citation

Type II restriction endonucleases--a historical perspective and more.
Pingoud et al. (2014)
4 more