Literature DB >> 20033061

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

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

Abstract

A key intermediate in translocation is an 'unlocked state' of the pre-translocation ribosome in which the P-site tRNA adopts the P/E hybrid state, the L1 stalk domain closes and ribosomal subunits adopt a ratcheted configuration. Here, through two- and three-colour smFRET imaging from multiple structural perspectives, EF-G is shown to accelerate structural and kinetic pathways in the ribosome, leading to this transition. The EF-G-bound ribosome remains highly dynamic in nature, wherein, the unlocked state is transiently and reversibly formed. The P/E hybrid state is energetically favoured, but exchange with the classical P/P configuration persists; the L1 stalk adopts a fast dynamic mode characterized by rapid cycles of closure and opening. These data support a model in which P/E hybrid state formation, L1 stalk closure and subunit ratcheting are loosely coupled, independent processes that must converge to achieve the unlocked state. The highly dynamic nature of these motions, and their sensitivity to conformational and compositional changes in the ribosome, suggests that regulating the formation of this intermediate may present an effective avenue for translational control.

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Year:  2009        PMID: 20033061      PMCID: PMC2829159          DOI: 10.1038/emboj.2009.384

Source DB:  PubMed          Journal:  EMBO J        ISSN: 0261-4189            Impact factor:   11.598


  53 in total

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Authors:  Martin Schüler; Sean R Connell; Aurelie Lescoute; Jan Giesebrecht; Marylena Dabrowski; Birgit Schroeer; Thorsten Mielke; Pawel A Penczek; Eric Westhof; Christian M T Spahn
Journal:  Nat Struct Mol Biol       Date:  2006-11-19       Impact factor: 15.369

2.  Crystal structure of a 70S ribosome-tRNA complex reveals functional interactions and rearrangements.

Authors:  Andrei Korostelev; Sergei Trakhanov; Martin Laurberg; Harry F Noller
Journal:  Cell       Date:  2006-09-07       Impact factor: 41.582

3.  Identification of two distinct hybrid state intermediates on the ribosome.

Authors:  James B Munro; Roger B Altman; Nathan O'Connor; Scott C Blanchard
Journal:  Mol Cell       Date:  2007-02-23       Impact factor: 17.970

4.  Kinetically competent intermediates in the translocation step of protein synthesis.

Authors:  Dongli Pan; Stanislav V Kirillov; Barry S Cooperman
Journal:  Mol Cell       Date:  2007-02-23       Impact factor: 17.970

5.  Intersubunit movement is required for ribosomal translocation.

Authors:  Lucas H Horan; Harry F Noller
Journal:  Proc Natl Acad Sci U S A       Date:  2007-03-08       Impact factor: 11.205

6.  Structures of modified eEF2 80S ribosome complexes reveal the role of GTP hydrolysis in translocation.

Authors:  Derek J Taylor; Jakob Nilsson; A Rod Merrill; Gregers Rom Andersen; Poul Nissen; Joachim Frank
Journal:  EMBO J       Date:  2007-04-19       Impact factor: 11.598

7.  Observation of intersubunit movement of the ribosome in solution using FRET.

Authors:  Dmitri N Ermolenko; Zigurts K Majumdar; Robyn P Hickerson; P Clint Spiegel; Robert M Clegg; Harry F Noller
Journal:  J Mol Biol       Date:  2007-04-20       Impact factor: 5.469

8.  Elongation factor G stabilizes the hybrid-state conformation of the 70S ribosome.

Authors:  P Clint Spiegel; Dmitri N Ermolenko; Harry F Noller
Journal:  RNA       Date:  2007-07-13       Impact factor: 4.942

9.  Structural basis for interaction of the ribosome with the switch regions of GTP-bound elongation factors.

Authors:  Sean R Connell; Chie Takemoto; Daniel N Wilson; Hongfei Wang; Kazutaka Murayama; Takaho Terada; Mikako Shirouzu; Maximilian Rost; Martin Schüler; Jan Giesebrecht; Marylena Dabrowski; Thorsten Mielke; Paola Fucini; Shigeyuki Yokoyama; Christian M T Spahn
Journal:  Mol Cell       Date:  2007-03-09       Impact factor: 17.970

10.  Structure of the 70S ribosome complexed with mRNA and tRNA.

Authors:  Maria Selmer; Christine M Dunham; Frank V Murphy; Albert Weixlbaumer; Sabine Petry; Ann C Kelley; John R Weir; V Ramakrishnan
Journal:  Science       Date:  2006-09-07       Impact factor: 47.728

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  48 in total

1.  Four-color single-molecule fluorescence with noncovalent dye labeling to monitor dynamic multimolecular complexes.

Authors:  Vanessa DeRocco; Trevor Anderson; Jacob Piehler; Dorothy A Erie; Keith Weninger
Journal:  Biotechniques       Date:  2010-11       Impact factor: 1.993

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

4.  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

Review 5.  EF-G and EF4: translocation and back-translocation on the bacterial ribosome.

Authors:  Hiroshi Yamamoto; Yan Qin; John Achenbach; Chengmin Li; Jaroslaw Kijek; Christian M T Spahn; Knud H Nierhaus
Journal:  Nat Rev Microbiol       Date:  2013-12-23       Impact factor: 60.633

6.  Tuning a riboswitch response through structural extension of a pseudoknot.

Authors:  Marie F Soulière; Roger B Altman; Veronika Schwarz; Andrea Haller; Scott C Blanchard; Ronald Micura
Journal:  Proc Natl Acad Sci U S A       Date:  2013-08-12       Impact factor: 11.205

7.  Simulating movement of tRNA through the ribosome during hybrid-state formation.

Authors:  Paul C Whitford; Karissa Y Sanbonmatsu
Journal:  J Chem Phys       Date:  2013-09-28       Impact factor: 3.488

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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