Literature DB >> 19717422

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

Jingyi Fei1, Jonathan E Bronson, Jake M Hofman, Rathi L Srinivas, Chris H Wiggins, Ruben L Gonzalez.   

Abstract

Determining the mechanism by which tRNAs rapidly and precisely transit through the ribosomal A, P, and E sites during translation remains a major goal in the study of protein synthesis. Here, we report the real-time dynamics of the L1 stalk, a structural element of the large ribosomal subunit that is implicated in directing tRNA movements during translation. Within pretranslocation ribosomal complexes, the L1 stalk exists in a dynamic equilibrium between open and closed conformations. Binding of elongation factor G (EF-G) shifts this equilibrium toward the closed conformation through one of at least two distinct kinetic mechanisms, where the identity of the P-site tRNA dictates the kinetic route that is taken. Within posttranslocation complexes, L1 stalk dynamics are dependent on the presence and identity of the E-site tRNA. Collectively, our data demonstrate that EF-G and the L1 stalk allosterically collaborate to direct tRNA translocation from the P to the E sites, and suggest a model for the release of E-site tRNA.

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Year:  2009        PMID: 19717422      PMCID: PMC2747183          DOI: 10.1073/pnas.0908077106

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


  38 in total

1.  Energetic contribution of tRNA hybrid state formation to translocation catalysis on the ribosome.

Authors:  Y P Semenkov; M V Rodnina; W Wintermeyer
Journal:  Nat Struct Biol       Date:  2000-11

2.  Accurate translocation of mRNA by the ribosome requires a peptidyl group or its analog on the tRNA moving into the 30S P site.

Authors:  Kurt Fredrick; Harry F Noller
Journal:  Mol Cell       Date:  2002-05       Impact factor: 17.970

3.  Rapid kinetic analysis of EF-G-dependent mRNA translocation in the ribosome.

Authors:  Sean M Studer; Jason S Feinberg; Simpson Joseph
Journal:  J Mol Biol       Date:  2003-03-21       Impact factor: 5.469

4.  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

5.  Locking and unlocking of ribosomal motions.

Authors:  Mikel Valle; Andrey Zavialov; Jayati Sengupta; Urmila Rawat; Måns Ehrenberg; Joachim Frank
Journal:  Cell       Date:  2003-07-11       Impact factor: 41.582

6.  Single-molecule three-color FRET.

Authors:  Sungchul Hohng; Chirlmin Joo; Taekjip Ha
Journal:  Biophys J       Date:  2004-08       Impact factor: 4.033

7.  tRNA dynamics on the ribosome during translation.

Authors:  Scott C Blanchard; Harold D Kim; Ruben L Gonzalez; Joseph D Puglisi; Steven Chu
Journal:  Proc Natl Acad Sci U S A       Date:  2004-08-18       Impact factor: 11.205

8.  Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation.

Authors:  Christian M T Spahn; Maria G Gomez-Lorenzo; Robert A Grassucci; Rene Jørgensen; Gregers R Andersen; Roland Beckmann; Pawel A Penczek; Juan P G Ballesta; Joachim Frank
Journal:  EMBO J       Date:  2004-02-19       Impact factor: 11.598

9.  Extension inhibition analysis of translation initiation complexes.

Authors:  D Hartz; D S McPheeters; R Traut; L Gold
Journal:  Methods Enzymol       Date:  1988       Impact factor: 1.600

Review 10.  Ribosomal translocation: one step closer to the molecular mechanism.

Authors:  Shinichiro Shoji; Sarah E Walker; Kurt Fredrick
Journal:  ACS Chem Biol       Date:  2009-02-20       Impact factor: 5.100

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  80 in total

1.  Ribosome recycling step in yeast cytoplasmic protein synthesis is catalyzed by eEF3 and ATP.

Authors:  Shinya Kurata; Klaus H Nielsen; Sarah F Mitchell; Jon R Lorsch; Akira Kaji; Hideko Kaji
Journal:  Proc Natl Acad Sci U S A       Date:  2010-06-01       Impact factor: 11.205

2.  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

3.  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

Review 4.  RNA reactions one molecule at a time.

Authors:  Ignacio Tinoco; Gang Chen; Xiaohui Qu
Journal:  Cold Spring Harb Perspect Biol       Date:  2010-04-14       Impact factor: 10.005

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.  The Ribosome Comes Alive.

Authors:  Joachim Frank
Journal:  Isr J Chem       Date:  2010-06-18       Impact factor: 3.333

7.  Selenocysteine insertion sequence (SECIS)-binding protein 2 alters conformational dynamics of residues involved in tRNA accommodation in 80 S ribosomes.

Authors:  Kelvin Caban; Paul R Copeland
Journal:  J Biol Chem       Date:  2012-02-03       Impact factor: 5.157

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

9.  In vivo single-RNA tracking shows that most tRNA diffuses freely in live bacteria.

Authors:  Anne Plochowietz; Ian Farrell; Zeev Smilansky; Barry S Cooperman; Achillefs N Kapanidis
Journal:  Nucleic Acids Res       Date:  2016-09-12       Impact factor: 16.971

Review 10.  Single-molecule nanometry for biological physics.

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