› 8bhd

X-ray diffraction
3.17Å resolution

N-terminal domain of Plasmodium berghei glutamyl-tRNA synthetase (Tbxo4 derivative crystal structure)

Released:
DOI: 10.2210/pdb8bhd/pdb
PDB entry 8bhd coloured by chain, front view.
PDB entry 8bhd coloured by chain, side view.
PDB entry 8bhd coloured by chain, top view.
Source organism: Plasmodium berghei ANKA
Primary publication:
Solution x-ray scattering highlights discrepancies in Plasmodium multi-aminoacyl-tRNA synthetase complexes.
Jaramillo Ponce JR, Théobald-Dietrich A, Bénas P, Paulus C, Sauter C, Frugier M
Protein Sci e4564 (2023)
PMID: 36606712

Function and Biology Details

Reaction catalysed: 
ATP + L-glutamate + tRNA(Glu) = AMP + diphosphate + L-glutamyl-tRNA(Glu)
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assemblies composition:
homo dimer (preferred)
homo tetramer
homo hexamer
Assembly name:
PDBe Complex ID:
PDB-CPX-105275 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
glutamate--tRNA ligase Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 249 amino acids
Theoretical weight: 29.65 KDa
Source organism: Plasmodium berghei ANKA
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: A0A509AR09 (Residues: 2-226; Coverage: 28%)
Gene name: PBANKA_1362000

Ligands and Environments

3 bound ligands:
Ligand SO4 5 x SO4
Ligand GOL 4 x GOL
Ligand TB 22 x TB
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: C2
Unit cell:
a: 130.11Å b: 88.51Å c: 168.64Å
α: 90° β: 105.7° γ: 90°
R-values:
R R work R free
0.194 0.192 0.237
Expression system: Escherichia coli BL21

Quick links

Citations

1 citations in other articles

Solution X-ray scattering highlights discrepancies in Plasmodium multi-aminoacyl-tRNA synthetase complexes.
Jaramillo Ponce et al. (2023)