EMDB/PDB/SASBDBから引用されている文献のデータベース

キーワード
構造解析手法	All X線回折 NMR 電子顕微鏡小角散乱中性子線回折線維回折粉末回折赤外分光 EPR FRET 理論モデルハイブリッド
著者・登録者
ジャーナル
IF	>30 >20 >10 >5 all

タイトル	Structures of the ribosome bound to EF-Tu-isoleucine tRNA elucidate the mechanism of AUG avoidance.
ジャーナル・号・ページ	Nat Struct Mol Biol, Year 2024
掲載日	2024年3月27日
著者	Mariia Yu Rybak / Matthieu G Gagnon /
PubMed 要旨	The frequency of errors upon decoding of messenger RNA by the bacterial ribosome is low, with one misreading event per 1 × 10 codons. In the universal genetic code, the AUN codon box specifies ...The frequency of errors upon decoding of messenger RNA by the bacterial ribosome is low, with one misreading event per 1 × 10 codons. In the universal genetic code, the AUN codon box specifies two amino acids, isoleucine and methionine. In bacteria and archaea, decoding specificity of the AUA and AUG codons relies on the wobble avoidance strategy that requires modification of C34 in the anticodon loop of isoleucine transfer RNA (tRNA). Bacterial tRNA with 2-lysylcytidine (lysidine) at the wobble position deciphers AUA while avoiding AUG. Here we report cryo-electron microscopy structures of the Escherichia coli 70S ribosome complexed with elongation factor thermo unstable (EF-Tu) and isoleucine-tRNA in the process of decoding AUA and AUG. Lysidine in tRNA excludes AUG by promoting the formation of an unusual Hoogsteen purine-pyrimidine nucleobase geometry at the third position of the codon, weakening the interactions with the mRNA and destabilizing the EF-Tu ternary complex. Our findings elucidate the molecular mechanism by which tRNA specifically decodes AUA over AUG.
リンク	Nat Struct Mol Biol / PubMed:38538914
手法	EM (単粒子)
解像度	2.8 - 3.1 Å
構造データ	29819 8g7p EMDB-29819, PDB-8g7p: Structure of the Escherichia coli 70S ribosome in complex with EF-Tu and Ile-tRNAIle(LAU) bound to the cognate AUA codon (Structure I) 手法: EM (単粒子) / 解像度: 2.9 Å 29820 8g7q EMDB-29820, PDB-8g7q: Structure of the Escherichia coli 70S ribosome in complex with EF-Tu and Ile-tRNAIle(LAU) bound to the near-cognate AUG codon (Structure II) 手法: EM (単粒子) / 解像度: 3.1 Å 29821 8g7r EMDB-29821, PDB-8g7r: Structure of the Escherichia coli 70S ribosome in complex with A-site tRNAIle(LAU) bound to the cognate AUA codon (Structure III) 手法: EM (単粒子) / 解像度: 2.8 Å 29822 8g7s EMDB-29822, PDB-8g7s: Structure of the Escherichia coli 70S ribosome in complex with P-site tRNAIle(LAU) bound to the cognate AUA codon (Structure IV) 手法: EM (単粒子) / 解像度: 3.1 Å
化合物	ChemComp-MG: Unknown entry / マグネシウムジカチオン ChemComp-K: Unknown entry / カリウムカチオン ChemComp-ILE: ISOLEUCINE / イソロイシン / イソロイシン ChemComp-GCP: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER / グアニリルメチレンジホスホン酸 / GMP-PCP, エネルギー貯蔵分子類似体YM ChemComp-ZN: Unknown entry ChemComp-HOH: WATER / 水 ChemComp-PAR: PAROMOMYCIN / パロモマイシン / Antimicrobial, 薬剤YM / パロモマイシン
由来	escherichia coli (大腸菌) escherichia phage t4 (ファージ)
キーワード	RIBOSOME (リボソーム) / Elongation factor Tu (EF-Tu) / lysidine 34 / cryo-EM (低温電子顕微鏡法) / tRNA (転移RNA) / paromomycin (パロモマイシン)