› 1it8

X-ray diffraction
2.5Å resolution

Crystal structure of archaeosine tRNA-guanine transglycosylase from Pyrococcus horikoshii complexed with archaeosine precursor, preQ0

Released:
DOI: 10.2210/pdb1it8/pdb
PDB entry 1it8 coloured by chain, front view.
PDB entry 1it8 coloured by chain, side view.
PDB entry 1it8 coloured by chain, top view.
Source organism: Pyrococcus horikoshii
Primary publication:
Crystal structure of archaeosine tRNA-guanine transglycosylase.
Ishitani R, Nureki O, Fukai S, Kijimoto T, Nameki N, Watanabe M, Kondo H, Sekine M, Okada N, Nishimura S, Yokoyama S
J Mol Biol 318 665-77 (2002)
PMID: 12054814

Function and Biology Details

Reaction catalysed: 
Guanine(15) in tRNA + 7-cyano-7-carbaguanine = 7-cyano-7-carbaguanine(15) in tRNA + guanine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129776 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA-guanine(15) transglycosylase Chains: A, B
Molecule details ›
Chains: A, B
Length: 582 amino acids
Theoretical weight: 66.7 KDa
Source organism: Pyrococcus horikoshii
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O58843 (Residues: 1-582; Coverage: 100%)
Gene names: PH1116, tgtA
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand ZN 2 x ZN
Ligand MG 2 x MG
Ligand PQ0 1 x PQ0
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL45PX
Spacegroup: P43212
Unit cell:
a: 100.467Å b: 100.467Å c: 366.168Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.232 0.232 0.278
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

11 review citations

Proline as a stress protectant in yeast: physiological functions, metabolic regulations, and biotechnological applications.
Takagi H. (2008)
10 more

6 mentions without citation

Novel genomic island modifies DNA with 7-deazaguanine derivatives.
Thiaville et al. (2016)
5 more