SNAP output for PDB entry 2byt [SNAP web server]

PDB-id

2byt; SNAP-derived features in text and JSON formats; DNAproDB

Class

synthetase

Method

X-ray (3.3 Å)

Summary

Thermus thermophilus leucyl-trna synthetase complexed with a trnaleu transcript in the post-editing conformation

Reference

Tukalo M, Yaremchuk A, Fukunaga R, Yokoyama S, Cusack S (2005): "The Crystal Structure of Leucyl-tRNA Synthetase Complexed with tRNA(Leu) in the Post-Transfer-Editing Conformation." Nat.Struct.Mol.Biol., 12, 923. doi: 10.1038/NSMB986.

Abstract

Leucyl-tRNA synthetase (LeuRS) has a specific post-transfer editing activity directed against mischarged isoleucine and similar noncognate amino acids. We describe the post-transfer-editing and product complexes of Thermus thermophilus LeuRS (LeuRSTT) with tRNA(Leu) at 2.9- to 3.3-A resolution. In the post-transfer-editing configuration, A76 binds in the editing active site exactly as previously found for the adenosine moiety of a small-molecule editing-substrate analog. The 60 C-terminal residues of LeuRSTT, unseen in previous structures, fold into a compact domain flexibly linked to the rest of the molecule and interacting with the G19-C56 tertiary base pair of tRNA(Leu). LeuRS recognition of tRNA(Leu) depends essentially on tRNA shape rather than base-specific interactions. The structures show that considerable domain rotations, notably of the editing domain, accompany the tRNA-3' end dynamics associated successively with aminoacylation, post-transfer editing and product release.