› 6wbd

X-ray diffraction
2.05Å resolution

Crystal Structure of Lysyl-tRNA synthetase from Stenotrophomonas maltophilia with bound L-lysine

Released:
DOI: 10.2210/pdb6wbd/pdb
PDB entry 6wbd coloured by chain, front view.
PDB entry 6wbd coloured by chain, side view.
PDB entry 6wbd coloured by chain, top view.
Source organism: Stenotrophomonas maltophilia K279a
Entry authors: Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Function and Biology Details

Reaction catalysed: 
ATP + L-lysine + tRNA(Lys) = AMP + diphosphate + L-lysyl-tRNA(Lys)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-109523 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Lysine--tRNA ligase Chains: A, B
Molecule details ›
Chains: A, B
Length: 511 amino acids
Theoretical weight: 58.01 KDa
Source organism: Stenotrophomonas maltophilia K279a
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: B2FQ84 (Residues: 1-503; Coverage: 100%)
Gene names: Smlt2232, lysS
Sequence domains:

Ligands and Environments

3 bound ligands:
Ligand LYS 2 x LYS
Ligand EDO 50 x EDO
Ligand CL 2 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: P3121
Unit cell:
a: 127.16Å b: 127.16Å c: 158.7Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.151 0.149 0.184
Expression system: Escherichia coli BL21(DE3)

Quick links