› 2c1l

X-ray diffraction
1.9Å resolution

Structure of the BfiI restriction endonuclease

Released:
DOI: 10.2210/pdb2c1l/pdb
PDB entry 2c1l coloured by chain, front view.
PDB entry 2c1l coloured by chain, side view.
PDB entry 2c1l coloured by chain, top view.
Source organism: Cytobacillus firmus
Primary publication:
Structure of the metal-independent restriction enzyme BfiI reveals fusion of a specific DNA-binding domain with a nonspecific nuclease.
Grazulis S, Manakova E, Roessle M, Bochtler M, Tamulaitiene G, Huber R, Siksnys V
Proc Natl Acad Sci U S A 102 15797-802 (2005)
PMID: 16247004

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 domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190250 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Restriction endonuclease Chains: A, B
Molecule details ›
Chains: A, B
Length: 358 amino acids
Theoretical weight: 40.04 KDa
Source organism: Cytobacillus firmus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9F4C9 (Residues: 1-358; Coverage: 100%)
Gene name: R
Sequence domains:
Structure domains:

Ligands and Environments

7 bound ligands:
Ligand GOL 4 x GOL
Ligand TRS 1 x TRS
Ligand TLA 2 x TLA
Ligand SRT 2 x SRT
Ligand TAR 1 x TAR
Ligand BCT 2 x BCT
Ligand MES 2 x MES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID13
Spacegroup: I4
Unit cell:
a: 138.925Å b: 138.925Å c: 94.135Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.188 0.217
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Natural and engineered nicking endonucleases--from cleavage mechanism to engineering of strand-specificity.
Chan et al. (2011)
6 more

12 mentions without citation

Structural and evolutionary classification of Type II restriction enzymes based on theoretical and experimental analyses.
Orlowski et al. (2008)
11 more