› 5y0n

X-ray diffraction
2.3Å resolution

Crystal structure of Bacillus subtilis TmcAL bound with ATP (SeMet derivative)

Released:
DOI: 10.2210/pdb5y0n/pdb
PDB entry 5y0n coloured by chain, front view.
PDB entry 5y0n coloured by chain, side view.
PDB entry 5y0n coloured by chain, top view.
Source organism: Bacillus subtilis
Primary publication:
Acetate-dependent tRNA acetylation required for decoding fidelity in protein synthesis.
Taniguchi T, Miyauchi K, Sakaguchi Y, Yamashita S, Soma A, Tomita K, Suzuki T
Nat Chem Biol 14 1010-1020 (2018)
PMID: 30150682

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128548 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA(Met) cytidine acetate ligase Chains: A, B
Molecule details ›
Chains: A, B
Length: 435 amino acids
Theoretical weight: 49.68 KDa
Source organism: Bacillus subtilis
Expression system: Escherichia coli
UniProt:
  • Canonical: O34513 (Residues: 1-415; Coverage: 100%)
Gene names: BSU15060, tmcAL, ylbM
Sequence domains: HIGH Nucleotidyl Transferase

Ligands and Environments

1 bound ligand:
Ligand ATP 2 x ATP
1 modified residue:
Ligand MSE 20 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P212121
Unit cell:
a: 68.037Å b: 68.021Å c: 209.952Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.183 0.181 0.221
Expression system: Escherichia coli

Quick links

Citations

10 review citations

Functions of Bacterial tRNA Modifications: From Ubiquity to Diversity.
de Crécy-Lagard et al. (2021)
9 more