› 4l87

X-ray diffraction
2.9Å resolution

Crystal structure of the human seryl-tRNA synthetase in complex with Ser-SA at 2.9 Angstrom resolution

Released:
DOI: 10.2210/pdb4l87/pdb
PDB entry 4l87 coloured by chain, front view.
PDB entry 4l87 coloured by chain, side view.
PDB entry 4l87 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of human Seryl-tRNA synthetase and Ser-SA complex reveals a molecular lever specific to higher eukaryotes.
Xu X, Shi Y, Yang XL
Structure 21 2078-86 (2013)
PMID: 24095058

Function and Biology Details

Reaction catalysed: 
ATP + L-serine + tRNA(Sec) = AMP + diphosphate + L-seryl-tRNA(Sec)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155961 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Serine--tRNA ligase, cytoplasmic Chain: A
Molecule details ›
Chain: A
Length: 476 amino acids
Theoretical weight: 54.52 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P49591 (Residues: 2-477; Coverage: 93%)
Gene names: SARS, SARS1, SERS
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand SSA 1 x SSA
Ligand PO4 1 x PO4
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: P321
Unit cell:
a: 167.074Å b: 167.074Å c: 65.156Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.256 0.255 0.268
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Unique roles of tryptophanyl-tRNA synthetase in immune control and its therapeutic implications.
Jin M. (2019)
8 other articles

8 mentions without citation

Structural Basis for Specific Inhibition of tRNA Synthetase by an ATP Competitive Inhibitor.
Fang et al. (2015)
7 more