Literature DB >> 19597483

Translation factors direct intrinsic ribosome dynamics during translation termination and ribosome recycling.

Samuel H Sternberg1, Jingyi Fei, Noam Prywes, Kelly A McGrath, Ruben L Gonzalez.   

Abstract

Characterizing the structural dynamics of the translating ribosome remains a major goal in the study of protein synthesis. Deacylation of peptidyl-tRNA during translation elongation triggers fluctuations of the pretranslocation ribosomal complex between two global conformational states. Elongation factor G-mediated control of the resulting dynamic conformational equilibrium helps to coordinate ribosome and tRNA movements during elongation and is thus a crucial mechanistic feature of translation. Beyond elongation, deacylation of peptidyl-tRNA also occurs during translation termination, and this deacylated tRNA persists during ribosome recycling. Here we report that specific regulation of the analogous conformational equilibrium by translation release and ribosome recycling factors has a critical role in the termination and recycling mechanisms. Our results support the view that specific regulation of the global state of the ribosome is a fundamental characteristic of all translation factors and a unifying theme throughout protein synthesis.

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Year:  2009        PMID: 19597483      PMCID: PMC4748396          DOI: 10.1038/nsmb.1622

Source DB:  PubMed          Journal:  Nat Struct Mol Biol        ISSN: 1545-9985            Impact factor:   15.369


  50 in total

1.  Release of peptide promoted by the GGQ motif of class 1 release factors regulates the GTPase activity of RF3.

Authors:  Andrei V Zavialov; Liliana Mora; Richard H Buckingham; Måns Ehrenberg
Journal:  Mol Cell       Date:  2002-10       Impact factor: 17.970

2.  Stop codon recognition and interactions with peptide release factor RF3 of truncated and chimeric RF1 and RF2 from Escherichia coli.

Authors:  Liliana Mora; Andrei Zavialov; Måns Ehrenberg; Richard H Buckingham
Journal:  Mol Microbiol       Date:  2003-12       Impact factor: 3.501

3.  Exploration of the transition state for tertiary structure formation between an RNA helix and a large structured RNA.

Authors:  Laura E Bartley; Xiaowei Zhuang; Rhiju Das; Steven Chu; Daniel Herschlag
Journal:  J Mol Biol       Date:  2003-05-16       Impact factor: 5.469

4.  Peptidyl-tRNA regulates the GTPase activity of translation factors.

Authors:  Andrey V Zavialov; Måns Ehrenberg
Journal:  Cell       Date:  2003-07-11       Impact factor: 41.582

5.  THE PUROMYCIN REACTION AND ITS RELATION TO PROTEIN SYNTHESIS.

Authors:  R R TRAUT; R E MONRO
Journal:  J Mol Biol       Date:  1964-10       Impact factor: 5.469

6.  Thiostrepton inhibition of tRNA delivery to the ribosome.

Authors:  Ruben L Gonzalez; Steven Chu; Joseph D Puglisi
Journal:  RNA       Date:  2007-10-19       Impact factor: 4.942

7.  Progression of the ribosome recycling factor through the ribosome dissociates the two ribosomal subunits.

Authors:  Chandana Barat; Partha P Datta; V Samuel Raj; Manjuli R Sharma; Hideko Kaji; Akira Kaji; Rajendra K Agrawal
Journal:  Mol Cell       Date:  2007-07-20       Impact factor: 17.970

8.  Coupling of ribosomal L1 stalk and tRNA dynamics during translation elongation.

Authors:  Jingyi Fei; Pallav Kosuri; Daniel D MacDougall; Ruben L Gonzalez
Journal:  Mol Cell       Date:  2008-05-09       Impact factor: 17.970

9.  Structural basis for aminoglycoside inhibition of bacterial ribosome recycling.

Authors:  Maria A Borovinskaya; Raj D Pai; Wen Zhang; Barbara S Schuwirth; James M Holton; Go Hirokawa; Hideko Kaji; Akira Kaji; Jamie H Doudna Cate
Journal:  Nat Struct Mol Biol       Date:  2007-07-29       Impact factor: 15.369

10.  Crystal structures of the ribosome in complex with release factors RF1 and RF2 bound to a cognate stop codon.

Authors:  Sabine Petry; Ditlev E Brodersen; Frank V Murphy; Christine M Dunham; Maria Selmer; Michael J Tarry; Ann C Kelley; V Ramakrishnan
Journal:  Cell       Date:  2005-12-29       Impact factor: 41.582

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  41 in total

1.  Dynamics of ribosomes and release factors during translation termination in E. coli.

Authors:  Sarah Adio; Heena Sharma; Tamara Senyushkina; Prajwal Karki; Cristina Maracci; Ingo Wohlgemuth; Wolf Holtkamp; Frank Peske; Marina V Rodnina
Journal:  Elife       Date:  2018-06-11       Impact factor: 8.140

2.  Learning rates and states from biophysical time series: a Bayesian approach to model selection and single-molecule FRET data.

Authors:  Jonathan E Bronson; Jingyi Fei; Jake M Hofman; Ruben L Gonzalez; Chris H Wiggins
Journal:  Biophys J       Date:  2009-12-16       Impact factor: 4.033

3.  A fast dynamic mode of the EF-G-bound ribosome.

Authors:  James B Munro; Roger B Altman; Chang-Shung Tung; Kevin Y Sanbonmatsu; Scott C Blanchard
Journal:  EMBO J       Date:  2009-12-24       Impact factor: 11.598

Review 4.  Antibiotics as probes of biological complexity.

Authors:  Shannon B Falconer; Tomasz L Czarny; Eric D Brown
Journal:  Nat Chem Biol       Date:  2011-07       Impact factor: 15.040

Review 5.  Studying genomic processes at the single-molecule level: introducing the tools and applications.

Authors:  David Dulin; Jan Lipfert; M Charl Moolman; Nynke H Dekker
Journal:  Nat Rev Genet       Date:  2012-10-30       Impact factor: 53.242

6.  Increasing the Time Resolution of Single-Molecule Experiments with Bayesian Inference.

Authors:  Colin D Kinz-Thompson; Ruben L Gonzalez
Journal:  Biophys J       Date:  2018-01-23       Impact factor: 4.033

Review 7.  In vitro and in vivo single-molecule fluorescence imaging of ribosome-catalyzed protein synthesis.

Authors:  Corey E Perez; Ruben L Gonzalez
Journal:  Curr Opin Chem Biol       Date:  2011-11-19       Impact factor: 8.822

8.  A highly purified, fluorescently labeled in vitro translation system for single-molecule studies of protein synthesis.

Authors:  Jingyi Fei; Jiangning Wang; Samuel H Sternberg; Daniel D MacDougall; Margaret M Elvekrog; Dileep K Pulukkunat; Michael T Englander; Ruben L Gonzalez
Journal:  Methods Enzymol       Date:  2010       Impact factor: 1.600

9.  Allosteric control of the ribosome by small-molecule antibiotics.

Authors:  Leyi Wang; Arto Pulk; Michael R Wasserman; Michael B Feldman; Roger B Altman; Jamie H Doudna Cate; Scott C Blanchard
Journal:  Nat Struct Mol Biol       Date:  2012-08-19       Impact factor: 15.369

10.  Allosteric collaboration between elongation factor G and the ribosomal L1 stalk directs tRNA movements during translation.

Authors:  Jingyi Fei; Jonathan E Bronson; Jake M Hofman; Rathi L Srinivas; Chris H Wiggins; Ruben L Gonzalez
Journal:  Proc Natl Acad Sci U S A       Date:  2009-08-27       Impact factor: 11.205

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