› 1b94

X-ray diffraction
1.9Å resolution

RESTRICTION ENDONUCLEASE ECORV WITH CALCIUM

Released:
DOI: 10.2210/pdb1b94/pdb
PDB entry 1b94 coloured by chain, front view.
PDB entry 1b94 coloured by chain, side view.
PDB entry 1b94 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structural analysis of a mutational hot-spot in the EcoRV restriction endonuclease: a catalytic role for a main chain carbonyl group.
Thomas MP, Brady RL, Halford SE, Sessions RB, Baldwin GS
Nucleic Acids Res 27 3438-45 (1999)
PMID: 10446231

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113466 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Type II restriction enzyme EcoRV Chains: A, B
Molecule details ›
Chains: A, B
Length: 244 amino acids
Theoretical weight: 28.56 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P04390 (Residues: 2-245; Coverage: 100%)
Gene name: ecoRVR
Sequence domains: Restriction endonuclease EcoRV
Structure domains: DNA mismatch repair MutH/Restriction endonuclease, type II
DNA (5'-D(*AP*AP*AP*GP*AP*TP*AP*TP*CP*TP*T)-3') Chains: C, D
Molecule details ›
Chains: C, D
Length: 11 nucleotides
Theoretical weight: 3.36 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SIEMENS
Spacegroup: P1
Unit cell:
a: 48.64Å b: 49.37Å c: 63.89Å
α: 96.94° β: 108.66° γ: 107.53°
R-values:
R R work R free
0.206 0.206 0.27
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

Structure and function of type II restriction endonucleases.
Pingoud et al. (2001)
7 other articles

6 mentions without citation

DNA conformations and their sequence preferences.
Svozil et al. (2008)
5 more