› 5gha

X-ray diffraction
2.5Å resolution

Sulfur Transferase TtuA in complex with Sulfur Carrier TtuB

Released:
DOI: 10.2210/pdb5gha/pdb
PDB entry 5gha coloured by chain, front view.
PDB entry 5gha coloured by chain, side view.
PDB entry 5gha coloured by chain, top view.
Source organism: Thermus thermophilus HB27
Primary publication:
Biochemical and structural characterization of oxygen-sensitive 2-thiouridine synthesis catalyzed by an iron-sulfur protein TtuA.
Chen M, Asai SI, Narai S, Nambu S, Omura N, Sakaguchi Y, Suzuki T, Ikeda-Saito M, Watanabe K, Yao M, Shigi N, Tanaka Y
Proc Natl Acad Sci U S A 114 4954-4959 (2017)
PMID: 28439027

Function and Biology Details

Reaction catalysed: 
ATP + [TtuB sulfur-carrier protein]-Gly-NH-CH(2)-C(O)SH + 5-methyluracil(54) in tRNA + H(2)O = AMP + diphosphate + 5-methyl-2-thiouracil(54) in tRNA + [TtuB sulfur-carrier protein]-Gly-Gly
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-180890 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
tRNA-5-methyluridine(54) 2-sulfurtransferase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 321 amino acids
Theoretical weight: 36.25 KDa
Source organism: Thermus thermophilus HB27
Expression system: Escherichia coli
UniProt:
  • Canonical: Q72LF3 (Residues: 1-321; Coverage: 100%)
Gene names: TT_C0106, ttuA
Sequence domains:
Structure domains: HUPs
Sulfur carrier protein TtuB Chains: E, F, G, H
Molecule details ›
Chains: E, F, G, H
Length: 85 amino acids
Theoretical weight: 9.54 KDa
Source organism: Thermus thermophilus HB27
Expression system: Escherichia coli
UniProt:
  • Canonical: Q72LF4 (Residues: 1-64; Coverage: 99%)
Gene names: TT_C0105, ttuB
Sequence domains: ThiS family

Ligands and Environments

3 bound ligands:
Ligand ZN 8 x ZN
Ligand SO4 3 x SO4
Ligand EDO 6 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: P1
Unit cell:
a: 54.139Å b: 93.873Å c: 97.532Å
α: 109.21° β: 104.57° γ: 106.86°
R-values:
R R work R free
0.198 0.196 0.246
Expression system: Escherichia coli

Quick links

Citations

6 review citations

Transfer RNA Modification Enzymes from Thermophiles and Their Modified Nucleosides in tRNA.
Hori et al. (2018)
5 more

3 mentions without citation

Biochemical and structural characterization of oxygen-sensitive 2-thiouridine synthesis catalyzed by an iron-sulfur protein TtuA.
Chen et al. (2017)
2 more