› 6h2j

X-ray diffraction
2.6Å resolution

Crystal structure of the HsdR subunit of the EcoR124I restriction enzyme with the C-terminal domain

Released:
DOI: 10.2210/pdb6h2j/pdb
PDB entry 6h2j coloured by chain, front view.
PDB entry 6h2j coloured by chain, side view.
PDB entry 6h2j coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Crystal structure of a novel domain of the motor subunit of the Type I restriction enzyme EcoR124 involved in complex assembly and DNA binding.
Grinkevich P, Sinha D, Iermak I, Guzanova A, Weiserova M, Ludwig J, Mesters JR, Ettrich RH
J Biol Chem 293 15043-15054 (2018)
PMID: 30054276

Function and Biology Details

Reaction catalysed: 
Endonucleolytic cleavage of DNA to give random double-stranded fragments with terminal 5'-phosphates, ATP is simultaneously hydrolyzed.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145319 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Type I restriction enzyme EcoR124I/EcoR124II endonuclease subunit Chains: A, B
Molecule details ›
Chains: A, B
Length: 1038 amino acids
Theoretical weight: 120.98 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P10486 (Residues: 1-1038; Coverage: 100%)
Gene names: hsdR, hsr
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand ATP 2 x ATP
Ligand MG 2 x MG
1 modified residue:
Ligand MSE 30 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X12
Spacegroup: P212121
Unit cell:
a: 123.91Å b: 129.922Å c: 161.01Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.204 0.203 0.264
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Visual pH Sensors: From a Chemical Perspective to New Bioengineered Materials.
Di Costanzo et al. (2021)
4 other articles

1 mention without citation

Crystal structure of a novel domain of the motor subunit of the Type I restriction enzyme EcoR124 involved in complex assembly and DNA binding.
Grinkevich et al. (2018)