Literature DB >> 20018653

Spontaneous formation of the unlocked state of the ribosome is a multistep process.

James B Munro1, Roger B Altman, Chang-Shung Tung, Jamie H D Cate, Kevin Y Sanbonmatsu, Scott C Blanchard.   

Abstract

The mechanism of substrate translocation through the ribosome is central to the rapid and faithful translation of mRNA into proteins. The rate-limiting step in translocation is an unlocking process that includes the formation of an "unlocked" intermediate state, which requires the convergence of large-scale conformational events within the ribosome including tRNA hybrid states formation, closure of the ribosomal L1 stalk domain, and subunit ratcheting. Here, by imaging of the pretranslocation ribosome complex from multiple structural perspectives using two- and three-color single-molecule fluorescence resonance energy transfer, we observe that tRNA hybrid states formation and L1 stalk closure, events central to the unlocking mechanism, are not tightly coupled. These findings reveal that the unlocked state is achieved through a stochastic-multistep process, where the extent of conformational coupling depends on the nature of tRNA substrates. These data suggest that cellular mechanisms affecting the coupling of conformational processes on the ribosome may regulate the process of translation elongation.

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Year:  2009        PMID: 20018653      PMCID: PMC2818936          DOI: 10.1073/pnas.0908597107

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  42 in total

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Authors:  N Leulliot; G Varani
Journal:  Biochemistry       Date:  2001-07-10       Impact factor: 3.162

2.  Following translation by single ribosomes one codon at a time.

Authors:  Jin-Der Wen; Laura Lancaster; Courtney Hodges; Ana-Carolina Zeri; Shige H Yoshimura; Harry F Noller; Carlos Bustamante; Ignacio Tinoco
Journal:  Nature       Date:  2008-03-09       Impact factor: 49.962

3.  The process of mRNA-tRNA translocation.

Authors:  Joachim Frank; Haixiao Gao; Jayati Sengupta; Ning Gao; Derek J Taylor
Journal:  Proc Natl Acad Sci U S A       Date:  2007-11-14       Impact factor: 11.205

4.  Following movement of the L1 stalk between three functional states in single ribosomes.

Authors:  Peter V Cornish; Dmitri N Ermolenko; David W Staple; Lee Hoang; Robyn P Hickerson; Harry F Noller; Taekjip Ha
Journal:  Proc Natl Acad Sci U S A       Date:  2009-02-03       Impact factor: 11.205

5.  Spontaneous intersubunit rotation in single ribosomes.

Authors:  Peter V Cornish; Dmitri N Ermolenko; Harry F Noller; Taekjip Ha
Journal:  Mol Cell       Date:  2008-06-06       Impact factor: 17.970

6.  Structure of ratcheted ribosomes with tRNAs in hybrid states.

Authors:  Patricia Julián; Andrey L Konevega; Sjors H W Scheres; Melisa Lázaro; David Gil; Wolfgang Wintermeyer; Marina V Rodnina; Mikel Valle
Journal:  Proc Natl Acad Sci U S A       Date:  2008-10-29       Impact factor: 11.205

7.  Role of hybrid tRNA-binding states in ribosomal translocation.

Authors:  Sarah E Walker; Shinichiro Shoji; Dongli Pan; Barry S Cooperman; Kurt Fredrick
Journal:  Proc Natl Acad Sci U S A       Date:  2008-06-30       Impact factor: 11.205

8.  Mitigating unwanted photophysical processes for improved single-molecule fluorescence imaging.

Authors:  Richa Dave; Daniel S Terry; James B Munro; Scott C Blanchard
Journal:  Biophys J       Date:  2009-03-18       Impact factor: 4.033

Review 9.  Structural dynamics of the ribosome.

Authors:  Andrei Korostelev; Dmitri N Ermolenko; Harry F Noller
Journal:  Curr Opin Chem Biol       Date:  2008-10-09       Impact factor: 8.822

10.  Visualization of the hybrid state of tRNA binding promoted by spontaneous ratcheting of the ribosome.

Authors:  Xabier Agirrezabala; Jianlin Lei; Julie L Brunelle; Rodrigo F Ortiz-Meoz; Rachel Green; Joachim Frank
Journal:  Mol Cell       Date:  2008-10-24       Impact factor: 17.970

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  71 in total

1.  Insights into the molecular determinants of EF-G catalyzed translocation.

Authors:  Leyi Wang; Roger B Altman; Scott C Blanchard
Journal:  RNA       Date:  2011-10-27       Impact factor: 4.942

2.  Crystal structure of release factor RF3 trapped in the GTP state on a rotated conformation of the ribosome.

Authors:  Jie Zhou; Laura Lancaster; Sergei Trakhanov; Harry F Noller
Journal:  RNA       Date:  2011-12-20       Impact factor: 4.942

3.  Excited states of ribosome translocation revealed through integrative molecular modeling.

Authors:  Paul C Whitford; Aqeel Ahmed; Yanan Yu; Scott P Hennelly; Florence Tama; Christian M T Spahn; José N Onuchic; Karissa Y Sanbonmatsu
Journal:  Proc Natl Acad Sci U S A       Date:  2011-11-11       Impact factor: 11.205

4.  Structural characterization of mRNA-tRNA translocation intermediates.

Authors:  Xabier Agirrezabala; Hstau Y Liao; Eduard Schreiner; Jie Fu; Rodrigo F Ortiz-Meoz; Klaus Schulten; Rachel Green; Joachim Frank
Journal:  Proc Natl Acad Sci U S A       Date:  2012-03-30       Impact factor: 11.205

5.  Ribosome dynamics and tRNA movement by time-resolved electron cryomicroscopy.

Authors:  Niels Fischer; Andrey L Konevega; Wolfgang Wintermeyer; Marina V Rodnina; Holger Stark
Journal:  Nature       Date:  2010-07-15       Impact factor: 49.962

6.  Conformational sampling of aminoacyl-tRNA during selection on the bacterial ribosome.

Authors:  Peter Geggier; Richa Dave; Michael B Feldman; Daniel S Terry; Roger B Altman; James B Munro; Scott C Blanchard
Journal:  J Mol Biol       Date:  2010-04-29       Impact factor: 5.469

7.  Single-molecule study of ribosome hierarchic dynamics at the peptidyl transferase center.

Authors:  Mediha Esra Altuntop; Cindy Tu Ly; Yuhong Wang
Journal:  Biophys J       Date:  2010-11-03       Impact factor: 4.033

8.  tRNA Fluctuations Observed on Stalled Ribosomes Are Suppressed during Ongoing Protein Synthesis.

Authors:  Ryan M Jamiolkowski; Chunlai Chen; Barry S Cooperman; Yale E Goldman
Journal:  Biophys J       Date:  2017-12-05       Impact factor: 4.033

Review 9.  Single-molecule nanometry for biological physics.

Authors:  Hajin Kim; Taekjip Ha
Journal:  Rep Prog Phys       Date:  2012-12-18

10.  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

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