Literature DB >> 22020300

Messenger RNA interactions in the decoding center control the rate of translocation.

Prashant K Khade1, Simpson Joseph.   

Abstract

During protein synthesis, mRNA and tRNAs are iteratively translocated by the ribosome. Precisely what molecular event is rate limiting for translocation is not known. Here we show that disruption of the interactions between the A-site codon and the ribosome accelerates translocation, suggesting that the release of the mRNA from the decoding center of the ribosome is the rate-limiting step of translocation. These results provide insight into the molecular mechanism of translocation.

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Year:  2011        PMID： 22020300     DOI： 10.1038/nsmb.2140

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


  20 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.  Recognition of cognate transfer RNA by the 30S ribosomal subunit.

Authors:  J M Ogle; D E Brodersen; W M Clemons ; M J Tarry; A P Carter; V Ramakrishnan
Journal:  Science       Date:  2001-05-04       Impact factor: 47.728

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.  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

5.  Ribosomal decoding processes at codons in the A or P sites depend differently on 2'-OH groups.

Authors:  A P Potapov; F J Triana-Alonso; K H Nierhaus
Journal:  J Biol Chem       Date:  1995-07-28       Impact factor: 5.157

6.  The antibiotic viomycin traps the ribosome in an intermediate state of translocation.

Authors:  Dmitri N Ermolenko; P Clint Spiegel; Zigurts K Majumdar; Robyn P Hickerson; Robert M Clegg; Harry F Noller
Journal:  Nat Struct Mol Biol       Date:  2007-05-21       Impact factor: 15.369

7.  An elongation factor G-induced ribosome rearrangement precedes tRNA-mRNA translocation.

Authors:  Andreas Savelsbergh; Vladimir I Katunin; Dagmar Mohr; Frank Peske; Marina V Rodnina; Wolfgang Wintermeyer
Journal:  Mol Cell       Date:  2003-06       Impact factor: 17.970

8.  mRNA translocation occurs during the second step of ribosomal intersubunit rotation.

Authors:  Dmitri N Ermolenko; Harry F Noller
Journal:  Nat Struct Mol Biol       Date:  2011-03-13       Impact factor: 15.369

9.  Colicin E3 cleavage of 16S rRNA impairs decoding and accelerates tRNA translocation on Escherichia coli ribosomes.

Authors:  Lorna E Lancaster; Andreas Savelsbergh; Colin Kleanthous; Wolfgang Wintermeyer; Marina V Rodnina
Journal:  Mol Microbiol       Date:  2008-07       Impact factor: 3.501

10.  The structure of the ribosome with elongation factor G trapped in the posttranslocational state.

Authors:  Yong-Gui Gao; Maria Selmer; Christine M Dunham; Albert Weixlbaumer; Ann C Kelley; V Ramakrishnan
Journal:  Science       Date:  2009-10-30       Impact factor: 47.728
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  27 in total

1.  Spontaneous ribosomal translocation of mRNA and tRNAs into a chimeric hybrid state.

Authors:  Jie Zhou; Laura Lancaster; John Paul Donohue; Harry F Noller
Journal:  Proc Natl Acad Sci U S A       Date:  2019-04-01       Impact factor: 11.205

2.  Decoding on the ribosome depends on the structure of the mRNA phosphodiester backbone.

Authors:  Hannah E Keedy; Erica N Thomas; Hani S Zaher
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-02       Impact factor: 11.205

3.  Steric complementarity in the decoding center is important for tRNA selection by the ribosome.

Authors:  Prashant K Khade; Xinying Shi; Simpson Joseph
Journal:  J Mol Biol       Date:  2013-03-27       Impact factor: 5.469

4.  EF-G catalyzes tRNA translocation by disrupting interactions between decoding center and codon-anticodon duplex.

Authors:  Guangqiao Liu; Guangtao Song; Danyang Zhang; Dejiu Zhang; Zhikai Li; Zhixin Lyu; Jianshu Dong; John Achenbach; Weimin Gong; Xin Sheng Zhao; Knud H Nierhaus; Yan Qin
Journal:  Nat Struct Mol Biol       Date:  2014-08-10       Impact factor: 15.369

5.  GTP hydrolysis by EF-G synchronizes tRNA movement on small and large ribosomal subunits.

Authors:  Wolf Holtkamp; Carlos E Cunha; Frank Peske; Andrey L Konevega; Wolfgang Wintermeyer; Marina V Rodnina
Journal:  EMBO J       Date:  2014-03-10       Impact factor: 11.598

6.  Miscoding-induced stalling of substrate translocation on the bacterial ribosome.

Authors:  Jose L Alejo; Scott C Blanchard
Journal:  Proc Natl Acad Sci U S A       Date:  2017-09-25       Impact factor: 11.205

Review 7.  Codon Bias as a Means to Fine-Tune Gene Expression.

Authors:  Tessa E F Quax; Nico J Claassens; Dieter Söll; John van der Oost
Journal:  Mol Cell       Date:  2015-07-16       Impact factor: 17.970

8.  Functional replacement of two highly conserved tetraloops in the bacterial ribosome.

Authors:  Bhubanananda Sahu; Prashant K Khade; Simpson Joseph
Journal:  Biochemistry       Date:  2012-09-12       Impact factor: 3.162

9.  The ribosome moves: RNA mechanics and translocation.

Authors:  Harry F Noller; Laura Lancaster; Jie Zhou; Srividya Mohan
Journal:  Nat Struct Mol Biol       Date:  2017-12-07       Impact factor: 15.369

10.  Visualization of two transfer RNAs trapped in transit during elongation factor G-mediated translocation.

Authors:  David J F Ramrath; Laura Lancaster; Thiemo Sprink; Thorsten Mielke; Justus Loerke; Harry F Noller; Christian M T Spahn
Journal:  Proc Natl Acad Sci U S A       Date:  2013-12-09       Impact factor: 11.205
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