› 3v21

X-ray diffraction
2.7Å resolution

Crystal structure of Type IIF restriction endonuclease Bse634I with cognate DNA

Released:
DOI: 10.2210/pdb3v21/pdb
Model geometry
Fit model/data
PDB entry 3v21 coloured by chain, front view.
PDB entry 3v21 coloured by chain, side view.
PDB entry 3v21 coloured by chain, top view.
Source organism: Geobacillus stearothermophilus
Primary publication:
Structural mechanisms of the degenerate sequence recognition by Bse634I restriction endonuclease.
Manakova E, Grazulis S, Zaremba M, Tamulaitiene G, Golovenko D, Siksnys V
OpenAccess logo Nucleic Acids Res 40 6741-51 (2012)
PMID: 22495930

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

Assemblies composition:
hetero octamer (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-117019 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Endonuclease Bse634IR Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 293 amino acids
Theoretical weight: 33.76 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8RT53 (Residues: 1-293; Coverage: 100%)
Gene name: bse634IR
Sequence domains: Cfr10I/Bse634I restriction endonuclease
Structure domains: Restriction Endonuclease
DNA (5'-D(*TP*TP*CP*GP*AP*CP*CP*GP*GP*TP*CP*GP*A)-3') Chains: I, J, K, L, M, N, O, P, R, S, V, X, Y, Z
Molecule details ›
Chains: I, J, K, L, M, N, O, P, R, S, V, X, Y, Z
Length: 13 nucleotides
Theoretical weight: 3.97 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: P21
Unit cell:
a: 106.88Å b: 115.311Å c: 130.243Å
α: 90° β: 112.5° γ: 90°
R-values:
R R work R free
0.234 0.23 0.267
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 citation in other articles

Restriction endonuclease AgeI is a monomer which dimerizes to cleave DNA.
Tamulaitiene et al. (2017)
1 more

3 mentions without citation

Functional significance of protein assemblies predicted by the crystal structure of the restriction endonuclease BsaWI.
Tamulaitis et al. (2015)
2 more