8YUQ

E. coli 70S ribosome complexed with P. putida tRNAIle2 and dA4 mRNA

これはPDB形式変換不可エントリーです。

8YUQ の概要

• エントリーDOI: 10.2210/pdb8yuq/pdb
• EMDBエントリー: 39579
• 分子名称: 16S rRNA, 30S ribosomal protein S10, 30S ribosomal protein S11, ... (56 entities in total)
• 機能のキーワード: trna modification, decoding, ribosome
• 由来する生物種: Escherichia coli; 詳細
• タンパク質・核酸の鎖数: 55
• 化学式量合計: 2209000.49

構造登録者

Akiyama, N.,Ishiguro, K.,Shirouzu, M.,Suzuki, T. (登録日: 2024-03-27, 公開日: 2024-11-06, 最終更新日: 2025-12-24)

主引用文献

Miyauchi, K.,Kimura, S.,Akiyama, N.,Inoue, K.,Ishiguro, K.,Vu, T.S.,Srisuknimit, V.,Koyama, K.,Hayashi, G.,Soma, A.,Nagao, A.,Shirouzu, M.,Okamoto, A.,Waldor, M.K.,Suzuki, T.
A tRNA modification with aminovaleramide facilitates AUA decoding in protein synthesis.
Nat.Chem.Biol., 21:522-531, 2025

PubMed Abstract: Modified tRNA anticodons are critical for proper mRNA translation during protein synthesis. It is generally thought that almost all bacterial tRNAs use a modified cytidine-lysidine (L)-at the first position (34) of the anticodon to decipher the AUA codon as isoleucine (Ile). Here we report that tRNAs from plant organelles and a subset of bacteria contain a new cytidine derivative, designated 2-aminovaleramididine (avaC). Like L34, avaC34 governs both Ile-charging ability and AUA decoding. Cryo-electron microscopy structural analyses revealed molecular details of codon recognition by avaC34 with a specific interaction between its terminal amide group and an mRNA residue 3'-adjacent to the AUA codon. These findings reveal the evolutionary variation of an essential tRNA modification and demonstrate the molecular basis of AUA decoding mediated by a unique tRNA modification.

PubMed: 39300229
DOI: 10.1038/s41589-024-01726-x

実験手法

ELECTRON MICROSCOPY (2.41 Å)