4V8C

Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex with paromomycin).

これはPDB形式変換不可エントリーです。

4V8C の概要

• エントリーDOI: 10.2210/pdb4v8c/pdb
• 分子名称: RNA (2912-MER), 50S ribosomal protein L14, 50S ribosomal protein L15, ... (57 entities in total)
• 機能のキーワード: rna, ribosome, trna, translation, mrna, ribosome-antibiotic complex, ribosome/antibiotic
• 由来する生物種: Thermus thermophilus; 詳細
• タンパク質・核酸の鎖数: 110
• 化学式量合計: 4520991.07

構造登録者

Jenner, L.,Demeshkina, N.,Yusupov, M.,Yusupova, G. (登録日: 2011-12-07, 公開日: 2014-07-09, 最終更新日: 2024-11-27)

主引用文献

Demeshkina, N.,Jenner, L.,Westhof, E.,Yusupov, M.,Yusupova, G.
A new understanding of the decoding principle on the ribosome.
Nature, 484:256-259, 2012

PubMed Abstract: During protein synthesis, the ribosome accurately selects transfer RNAs (tRNAs) in accordance with the messenger RNA (mRNA) triplet in the decoding centre. tRNA selection is initiated by elongation factor Tu, which delivers tRNA to the aminoacyl tRNA-binding site (A site) and hydrolyses GTP upon establishing codon-anticodon interactions in the decoding centre. At the following proofreading step the ribosome re-examines the tRNA and rejects it if it does not match the A codon. It was suggested that universally conserved G530, A1492 and A1493 of 16S ribosomal RNA, critical for tRNA binding in the A site, actively monitor cognate tRNA, and that recognition of the correct codon-anticodon duplex induces an overall ribosome conformational change (domain closure). Here we propose an integrated mechanism for decoding based on six X-ray structures of the 70S ribosome determined at 3.1-3.4 Å resolution, modelling cognate or near-cognate states of the decoding centre at the proofreading step. We show that the 30S subunit undergoes an identical domain closure upon binding of either cognate or near-cognate tRNA. This conformational change of the 30S subunit forms a decoding centre that constrains the mRNA in such a way that the first two nucleotides of the A codon are limited to form Watson-Crick base pairs. When U·G and G·U mismatches, generally considered to form wobble base pairs, are at the first or second codon-anticodon position, the decoding centre forces this pair to adopt the geometry close to that of a canonical C·G pair. This by itself, or with distortions in the codon-anticodon mini-helix and the anticodon loop, causes the near-cognate tRNA to dissociate from the ribosome.

PubMed: 22437501
DOI: 10.1038/nature10913

実験手法

X-RAY DIFFRACTION (3.3 Å)