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Structure paper

タイトル	The ribosome termination complex remodels release factor RF3 and ejects GDP.
ジャーナル・号・ページ	Nat Struct Mol Biol, Year 2024
掲載日	2024年7月19日
著者	Li Li / Mariia Yu Rybak / Jinzhong Lin / Matthieu G Gagnon /
PubMed 要旨	Translation termination involves release factors RF1, RF2 and the GTPase RF3 that recycles RF1 and RF2 from the ribosome. RF3 dissociates from the ribosome in the GDP-bound form and must then ...Translation termination involves release factors RF1, RF2 and the GTPase RF3 that recycles RF1 and RF2 from the ribosome. RF3 dissociates from the ribosome in the GDP-bound form and must then exchange GDP for GTP. The 70S ribosome termination complex (70S-TC) accelerates GDP exchange in RF3, suggesting that the 70S-TC can function as the guanine nucleotide exchange factor for RF3. Here, we use cryogenic-electron microscopy to elucidate the mechanism of GDP dissociation from RF3 catalyzed by the Escherichia coli 70S-TC. The non-rotated ribosome bound to RF1 remodels RF3 and induces a peptide flip in the phosphate-binding loop, efficiently ejecting GDP. Binding of GTP allows RF3 to dock at the GTPase center, promoting the dissociation of RF1 from the ribosome. The structures recapitulate the functional cycle of RF3 on the ribosome and uncover the mechanism by which the 70S-TC allosterically dismantles the phosphate-binding groove in RF3, a previously overlooked function of the ribosome.
リンク	Nat Struct Mol Biol / PubMed:39030416
手法	EM (単粒子)
解像度	2.9 - 3.6 Å
構造データ	29620 8fzd EMDB-29620, PDB-8fzd: Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with apoRF3, RF1, P- and E-site tRNAPhe (Composite state I-B) 手法: EM (単粒子) / 解像度: 3.1 Å 29621 8fze EMDB-29621, PDB-8fze: Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF1, P- and E-site tRNAPhe (State I-A) 手法: EM (単粒子) / 解像度: 3.0 Å EMDB-29622: Cryo-EM structure of an E. coli rotated ribosome complex bound with RF3-ppGpp and p/E-tRNAPhe (State I-C) 手法: EM (単粒子) / 解像度: 3.2 Å EMDB-29623: RF3-ppGpp bound to an E. coli rotated ribosome, from focused classification and refinement (State I-C) 手法: EM (単粒子) / 解像度: 3.6 Å 29624 8fzf EMDB-29624, PDB-8fzf: Cryo-EM structure of an E. coli rotated ribosome complex bound with RF3-ppGpp and p/E-tRNAPhe (Composite state I-C) 手法: EM (単粒子) / 解像度: 3.2 Å 29627 8fzg EMDB-29627, PDB-8fzg: Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF3-GDPCP, RF1, P- and E-site tRNAPhe (Composite state II-A) 手法: EM (単粒子) / 解像度: 3.1 Å 29628 8fzh EMDB-29628, PDB-8fzh: Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF1, P- and E-site tRNAPhe (State II-D) 手法: EM (単粒子) / 解像度: 2.9 Å 29631 8fzi EMDB-29631, PDB-8fzi: Cryo-EM structure of an E. coli rotated ribosome bound with RF3-GDPCP and p/E-tRNAPhe (Composite state II-B) 手法: EM (単粒子) / 解像度: 3.1 Å 29634 8fzj EMDB-29634, PDB-8fzj: Cryo-EM structure of an E. coli rotated ribosome bound with RF3-GDPCP and p/E-tRNAPhe (Composite state II-C) 手法: EM (単粒子) / 解像度: 3.0 Å
化合物	ChemComp-MG: Unknown entry / マグネシウムジカチオン ChemComp-ZN: Unknown entry ChemComp-HOH: WATER ChemComp-G4P: GUANOSINE-5',3'-TETRAPHOSPHATE / ppGpp 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
由来	escherichia coli (大腸菌) escherichia phage t4 (ファージ) escherichia coli k-12 (大腸菌)
キーワード	RIBOSOME / release factor 1 / release factor 3 / termination complex / cryo-EM / tRNA / RIBOSOME/RNA / RIBOSOME-RNA complex