Evidence map›Paper›PMID 39030416›Full record

ArticleNature structural & molecular biology2024

The ribosome termination complex remodels release factor RF3 and ejects GDP.

Li Li, Mariia Yu Rybak, Jinzhong Lin, Matthieu G Gagnon

Abstract read
In one paragraph

Article in Nature structural & molecular biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. A cascade of structural rearrangements positions peptide release factor 2 for polypeptide hydrolysis on the ribosome.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

4 authors.

Li Li *State Key Laboratory of Genetic Engineering, School of Life Sciences, Zhongshan Hospital, Fudan University, Shanghai, China.ORCID http://orcid.org/0000-0002-4275-0833
Mariia Yu Rybak *Department of Microbiology and Immunology, University of Texas Medical Branch, Galveston, TX, USA.ORCID http://orcid.org/0000-0002-0478-0222
Jinzhong LinState Key Laboratory of Genetic Engineering, School of Life Sciences, Zhongshan Hospital, Fudan University, Shanghai, China. linjinzhong@fudan.edu.cn.ORCID http://orcid.org/0000-0001-5666-8526
Matthieu G GagnonDepartment of Microbiology and Immunology, University of Texas Medical Branch, Galveston, TX, USA. magagnon@utmb.edu.ORCID http://orcid.org/0000-0003-4516-604X

Funding

XRAY CRYSTALLOGRAPHIC STRUCTURE ANALYSIS: PROTEIN SORTINGP41RR001081 · NCRR · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI COHEN, BRUCE E · 1985 to 2011
$17.6M
ChimeraX -- Next Generation Visualization and Analysis Software for Multiscale ModelingR01GM129325 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2018 to 2025
$5.2M
Structural Basis for the Allosteric Mechanisms Regulating Ribosome FunctionR01GM136936 · NIGMS · UNIVERSITY OF TEXAS MED BR GALVESTON · PI GAGNON, MATTHIEU · 2020 to 2024
$1.8M
NCRR NIH HHS P41 RR001081NIGMS NIH HHS R01 GM129325NIGMS NIH HHS R01 GM136936
6 · The paper itself

Abstract

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.

Indexed as

Cryoelectron MicroscopyEscherichia coliEscherichia coli ProteinsGuanosine DiphosphateGuanosine TriphosphatePeptide Termination FactorsRibosomesModels, MolecularPeptide Chain Termination, TranslationalProtein BindingEscherichia coli ProteinsGuanosine DiphosphateGuanosine TriphosphatePeptide Termination FactorsprfC protein, E coli

Identifiers

PMID39030416
PMCPMC11995864

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.