2rkj

X-ray diffraction
4.5Å resolution

Cocrystal structure of a tyrosyl-tRNA synthetase splicing factor with a group I intron RNA

Released:

Function and Biology Details

Reaction catalysed:
ATP + L-tyrosine + tRNA(Tyr) = AMP + diphosphate + L-tyrosyl-tRNA(Tyr)
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-250172 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 distinct):
Tyrosine--tRNA ligase, mitochondrial Chains: A, B, E, F, I, J, M, N
Molecule details ›
Chains: A, B, E, F, I, J, M, N
Length: 392 amino acids
Theoretical weight: 44.92 KDa
Source organism: Neurospora crassa
Expression system: Escherichia coli
UniProt:
  • Canonical: P12063 (Residues: 33-423; Coverage: 58%)
Gene names: B18P24.070, NCU03030, cyt-18
Sequence domains: tRNA synthetases class I (W and Y)
RNA (238-MER) Chains: C, G, K, O
Molecule details ›
Chains: C, G, K, O
Length: 246 nucleotides
Theoretical weight: 79.49 KDa
Source organism: Staphylococcus virus Twort
Expression system: Staphylococcus virus Twort
Sequence domains: Group I catalytic intron
RNA (5'-R(P*GP*CP*UP*U)-3') Chains: D, H, L, P
Molecule details ›
Chains: D, H, L, P
Length: 4 nucleotides
Theoretical weight: 1.22 KDa
Source organism: Neurospora crassa
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P2
Unit cell:
a: 231.063Å b: 123.525Å c: 235.231Å
α: 90° β: 90.26° γ: 90°
R-values:
R R work R free
0.235 0.235 0.249
Expression systems:
  • Escherichia coli
  • Staphylococcus virus Twort
  • Not provided