› 4cs4

X-ray diffraction
1.35Å resolution

Catalytic domain of Pyrrolysyl-tRNA synthetase mutant Y306A, Y384F in complex with AMPPNP

Released:
DOI: 10.2210/pdb4cs4/pdb
PDB entry 4cs4 coloured by chain, front view.
PDB entry 4cs4 coloured by chain, side view.
PDB entry 4cs4 coloured by chain, top view.
Source organism: Methanosarcina mazei
Primary publication:
Structural basis of furan-amino acid recognition by a polyspecific aminoacyl-tRNA-synthetase and its genetic encoding in human cells.
Schmidt MJ, Weber A, Pott M, Welte W, Summerer D
Chembiochem 15 1755-60 (2014)
PMID: 24737732

Function and Biology Details

Reaction catalysed: 
ATP + L-pyrrolysine + tRNA(Pyl) = AMP + diphosphate + L-pyrrolysyl-tRNA(Pyl)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-185817 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyrrolysine--tRNA ligase Chain: A
Molecule details ›
Chain: A
Length: 274 amino acids
Theoretical weight: 31.74 KDa
Source organism: Methanosarcina mazei
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8PWY1 (Residues: 188-454; Coverage: 59%)
Gene names: MM_1445, pylS
Sequence domains: tRNA synthetases class II core domain (F)
Structure domains:

Ligands and Environments

5 bound ligands:
Ligand ANP 1 x ANP
Ligand EDO 20 x EDO
Ligand MG 2 x MG
Ligand AXZ 1 x AXZ
Ligand PO4 1 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: C2
Unit cell:
a: 102.075Å b: 44.533Å c: 64.359Å
α: 90° β: 99.66° γ: 90°
R-values:
R R work R free
0.15 0.148 0.176
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Expanded genetic code technologies for incorporating modified lysine at multiple sites.
Yanagisawa et al. (2014)
1 more