› 3fi0

X-ray diffraction
2.7Å resolution

Crystal Structure Analysis of B. stearothermophilus Tryptophanyl-tRNA Synthetase Complexed with Tryptophan, AMP, and Inorganic Phosphate

Released:
DOI: 10.2210/pdb3fi0/pdb
PDB entry 3fi0 coloured by chain, front view.
PDB entry 3fi0 coloured by chain, side view.
PDB entry 3fi0 coloured by chain, top view.
Source organism: Geobacillus stearothermophilus
Primary publication:
Independent saturation of three TrpRS subsites generates a partially assembled state similar to those observed in molecular simulations.
Laowanapiban P, Kapustina M, Vonrhein C, Delarue M, Koehl P, Carter CW
Proc Natl Acad Sci U S A 106 1790-5 (2009)
PMID: 19174517

Function and Biology Details

Reaction catalysed: 
ATP + L-tryptophan + tRNA(Trp) = AMP + diphosphate + L-tryptophyl-tRNA(Trp)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-133715 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Tryptophan--tRNA ligase Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R
Length: 326 amino acids
Theoretical weight: 37.38 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P00953 (Residues: 1-326; Coverage: 99%)
Gene name: trpS
Sequence domains: tRNA synthetases class I (W and Y)
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand TRP 18 x TRP
Ligand PO4 18 x PO4
Ligand AMP 18 x AMP
1 modified residue:
Ligand MSE 180 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P1
Unit cell:
a: 122.032Å b: 122.396Å c: 122.341Å
α: 79.9° β: 80.52° γ: 79.81°
R-values:
R R work R free
0.19 0.19 0.22
Expression system: Escherichia coli BL21

Quick links

Citations

1 review citation

High-Dimensional Mutant and Modular Thermodynamic Cycles, Molecular Switching, and Free Energy Transduction.
Carter CW. (2017)
15 other articles

3 mentions without citation

An appended domain results in an unusual architecture for malaria parasite tryptophanyl-tRNA synthetase.
Khan et al. (2013)
2 more