› 3odh

X-ray diffraction
2.3Å resolution

Structure of OkrAI/DNA complex

Released:
DOI: 10.2210/pdb3odh/pdb
PDB entry 3odh coloured by chain, front view.
PDB entry 3odh coloured by chain, side view.
PDB entry 3odh coloured by chain, top view.
Source organism: Oceanobacter kriegii
Primary publication:
Asymmetric DNA recognition by the OkrAI endonuclease, an isoschizomer of BamHI.
Vanamee ES, Viadiu H, Chan SH, Ummat A, Hartline AM, Xu SY, Aggarwal AK
Nucleic Acids Res 39 712-9 (2011)
PMID: 20833632

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-116645 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
OkrAI endonuclease Chains: A, B, E, F
Molecule details ›
Chains: A, B, E, F
Length: 194 amino acids
Theoretical weight: 21.87 KDa
Source organism: Oceanobacter kriegii
Expression system: Escherichia coli
Structure domains: Restriction Endonuclease
DNA (5'-D(*TP*AP*TP*GP*GP*AP*TP*CP*CP*AP*TP*A)-3') Chains: C, D, G, H
Molecule details ›
Chains: C, D, G, H
Length: 12 nucleotides
Theoretical weight: 3.66 KDa
Source organism: Oceanobacter kriegii
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand CA 6 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P212121
Unit cell:
a: 80.982Å b: 83.075Å c: 119.67Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.159 0.155 0.234
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

9 citation in other articles

A Systems Biology Approach to Deciphering the Etiology of Steatosis Employing Patient-Derived Dermal Fibroblasts and iPS Cells.
Jozefczuk et al. (2012)
8 more

3 mentions without citation

Sequence, structure and functional diversity of PD-(D/E)XK phosphodiesterase superfamily.
Steczkiewicz et al. (2012)
2 more