› 8axp

X-ray diffraction
1.83Å resolution

Neisseria gonorrhoeae peptidyl-tRNA hydrolase complexed with an XChem hit.

Released:
DOI: 10.2210/pdb8axp/pdb
PDB entry 8axp coloured by chain, front view.
PDB entry 8axp coloured by chain, side view.
PDB entry 8axp coloured by chain, top view.
Source organism: Neisseria gonorrhoeae
Primary publication:
Synthesis of a Thiazole Library via an Iridium-Catalyzed Sulfur Ylide Insertion Reaction.
Hassell-Hart S, Speranzini E, Srikwanjai S, Hossack E, Roe SM, Fearon D, Akinbosede D, Hare S, Spencer J
OpenAccess logo Org Lett 24 7924-7927 (2022)
PMID: 36265082

Function and Biology Details

Reaction catalysed: 
N-substituted aminoacyl-tRNA + H(2)O = N-substituted amino acid + tRNA
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-502891 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Peptidyl-tRNA hydrolase Chains: A, B
Molecule details ›
Chains: A, B
Length: 192 amino acids
Theoretical weight: 21.48 KDa
Source organism: Neisseria gonorrhoeae
Expression system: Escherichia coli
UniProt:
  • Canonical: B4RK78 (Residues: 1-192; Coverage: 100%)
Gene names: NGK_0538, pth
Sequence domains: Peptidyl-tRNA hydrolase

Ligands and Environments

2 bound ligands:
Ligand O0J 2 x O0J
Ligand SO4 7 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P212121
Unit cell:
a: 43.44Å b: 71.51Å c: 146.99Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.336 0.334 0.364
Expression system: Escherichia coli

Quick links

Citations

1 mention without citation

Synthesis of a Thiazole Library via an Iridium-Catalyzed Sulfur Ylide Insertion Reaction.
Hassell-Hart et al. (2022)