› 5dwc

X-ray diffraction
2.5Å resolution

Crystal structure of restriction endonuclease AgeI

Released:
DOI: 10.2210/pdb5dwc/pdb
PDB entry 5dwc coloured by chain, front view.
PDB entry 5dwc coloured by chain, side view.
PDB entry 5dwc coloured by chain, top view.
Source organism: Thalassobius gelatinovorus
Primary publication:
Restriction endonuclease AgeI is a monomer which dimerizes to cleave DNA.
Tamulaitiene G, Jovaisaite V, Tamulaitis G, Songailiene I, Manakova E, Zaremba M, Grazulis S, Xu SY, Siksnys V
OpenAccess logo Nucleic Acids Res 45 3547-3558 (2017)
PMID: 28039325

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 domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-191891 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Type II restriction enzyme AgeI Chain: A
Molecule details ›
Chain: A
Length: 278 amino acids
Theoretical weight: 30.59 KDa
Source organism: Thalassobius gelatinovorus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9KHV6 (Residues: 1-278; Coverage: 100%)
Gene name: ageIR
Sequence domains: BsaWI restriction endonuclease type 2

Ligands and Environments

No bound ligands
1 modified residue:
Ligand CSO 1 x CSO

Experiments and Validation Details

Entry percentile scores
X-ray source: MAX II BEAMLINE I911-3
Spacegroup: P212121
Unit cell:
a: 37.213Å b: 59.269Å c: 120.915Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.219 0.214 0.256
Expression system: Escherichia coli

Quick links

Citations

6 citation in other articles

Structure and mechanism of a Type III CRISPR defence DNA nuclease activated by cyclic oligoadenylate.
McMahon et al. (2020)
5 more

2 mentions without citation

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