› 2dch

X-ray diffraction
2.06Å resolution

Crystal structure of archaeal intron-encoded homing endonuclease I-Tsp061I

Released:
DOI: 10.2210/pdb2dch/pdb
PDB entry 2dch coloured by chain, front view.
PDB entry 2dch coloured by chain, side view.
PDB entry 2dch coloured by chain, top view.
Source organism: Thermoproteus
Primary publication:
Structure of a hyperthermophilic archaeal homing endonuclease, I-Tsp061I: contribution of cross-domain polar networks to thermostability.
Nakayama H, Shimamura T, Imagawa T, Shirai N, Itoh T, Sako Y, Miyano M, Sakuraba H, Ohshima T, Nomura N, Tsuge H
J Mol Biol 365 362-78 (2007)
PMID: 17069851

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo trimer
Assembly name:
PDBe Complex ID:
PDB-CPX-184992 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DOD-type homing endonuclease domain-containing protein Chain: X
Molecule details ›
Chain: X
Length: 216 amino acids
Theoretical weight: 24.66 KDa
Source organism: Thermoproteus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8J309 (Residues: 8-203; Coverage: 97%)
Sequence domains: LAGLIDADG-like domain
Structure domains: Homing endonucleases

Ligands and Environments

2 bound ligands:
Ligand CL 1 x CL
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-6A
Spacegroup: R32
Unit cell:
a: 91.593Å b: 91.593Å c: 193.643Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.204 0.202 0.243
Expression system: Escherichia coli

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Citations

5 citation in other articles

Computer design of obligate heterodimer meganucleases allows efficient cutting of custom DNA sequences.
Fajardo-Sanchez et al. (2008)
4 more