› 6a88

X-ray diffraction
2.6Å resolution

Crystal Structure of T. gondii prolyl tRNA synthetase with Febrifugine and ATP Analog

Released:
DOI: 10.2210/pdb6a88/pdb
PDB entry 6a88 coloured by chain, front view.
PDB entry 6a88 coloured by chain, side view.
PDB entry 6a88 coloured by chain, top view.
Source organism: Toxoplasma gondii ME49
Primary publication:
Conformational heterogeneity in apo and drug-bound structures of Toxoplasma gondii prolyl-tRNA synthetase.
Mishra S, Malhotra N, Kumari S, Sato M, Kikuchi H, Yogavel M, Sharma A
Acta Crystallogr F Struct Biol Commun 75 714-724 (2019)
PMID: 31702585

Function and Biology Details

Reaction catalysed: 
ATP + L-proline + tRNA(Pro) = AMP + diphosphate + L-prolyl-tRNA(Pro)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-197467 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
proline--tRNA ligase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 500 amino acids
Theoretical weight: 57.94 KDa
Source organism: Toxoplasma gondii ME49
Expression system: Escherichia coli
UniProt:
  • Canonical: S8G8I1 (Residues: 334-830; Coverage: 60%)
Gene name: TGME49_219850
Sequence domains:

Ligands and Environments

3 bound ligands:
Ligand ANP 4 x ANP
Ligand MG 4 x MG
Ligand 9SF 4 x 9SF
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: P1
Unit cell:
a: 76.91Å b: 90.882Å c: 93.028Å
α: 89.91° β: 80.3° γ: 75.58°
R-values:
R R work R free
0.175 0.172 0.22
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Exploration of aminoacyl-tRNA synthetases from eukaryotic parasites for drug development.
Gill et al. (2023)
1 more

1 mention without citation

Conformational heterogeneity in apo and drug-bound structures of Toxoplasma gondii prolyl-tRNA synthetase.
Mishra et al. (2019)