› 5xob

X-ray diffraction
2.48Å resolution

Crystal structure of apo TiaS (tRNAIle2 agmatidine synthetase)

Released:
DOI: 10.2210/pdb5xob/pdb
PDB entry 5xob coloured by chain, front view.
PDB entry 5xob coloured by chain, side view.
PDB entry 5xob coloured by chain, top view.
Source organism: Archaeoglobus fulgidus DSM 4304
Primary publication:
Structure of tRNA-Modifying Enzyme TiaS and Motions of Its Substrate Binding Zinc Ribbon.
Dong J, Li F, Gao F, Wei J, Lin Y, Zhang Y, Lou J, Liu G, Dong Y, Liu L, Liu H, Wang J, Gong W
J Mol Biol 430 4183-4194 (2018)
PMID: 30121296

Function and Biology Details

Reaction catalysed: 
ATP + agmatine + (tRNA(Ile)(2))-cytidine(34) + H(2)O = (tRNA(Ile)(2))-2-agmatinylcytidine(34) + AMP + 2 phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-519020 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA(Ile2) 2-agmatinylcytidine synthetase TiaS Chain: Z
Molecule details ›
Chain: Z
Length: 420 amino acids
Theoretical weight: 48.37 KDa
Source organism: Archaeoglobus fulgidus DSM 4304
Expression system: Escherichia coli
UniProt:
  • Canonical: O28025 (Residues: 1-420; Coverage: 100%)
Gene names: AF_2259, tiaS
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand MG 1 x MG
1 modified residue:
Ligand TPO 1 x TPO

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17B1
Spacegroup: P41212
Unit cell:
a: 68.926Å b: 68.926Å c: 211.102Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.245 0.245 0.294
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Normal Mode Analysis as a Routine Part of a Structural Investigation.
Bauer et al. (2019)
1 more