Literature DB >> 31134795

Mechanochemistry in Translation.

Sarah E Leininger1, Karthik Narayan1, Carol Deutsch2, Edward P O'Brien1,3,4.   

Abstract

As the influence of translation rates on protein folding and function has come to light, the mechanisms by which translation speed is modulated have become an important issue. One mechanism entails the generation of force by the nascent protein. Cotranslational processes, such as nascent protein folding, the emergence of unfolded nascent chain segments from the ribosome's exit tunnel, and insertion of the nascent chain into or translocation of the nascent chain through membranes, can generate forces that are transmitted back to the peptidyl transferase center and affect translation rates. In this Perspective, we examine the processes that generate these forces, the mechanisms of transmission along the ribosomal exit tunnel to the peptidyl transferase center, and the effects of force on the ribosome's catalytic cycle. We also discuss the physical models that have been developed to predict and explain force generation for individual processes and speculate about other processes that may generate forces that have yet to be tested.

Entities:  

Year:  2019        PMID: 31134795      PMCID: PMC6879781          DOI: 10.1021/acs.biochem.9b00260

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  54 in total

1.  New scenarios of protein folding can occur on the ribosome.

Authors:  Edward P O'Brien; John Christodoulou; Michele Vendruscolo; Christopher M Dobson
Journal:  J Am Chem Soc       Date:  2011-01-04       Impact factor: 15.419

2.  The geometry of the ribosomal polypeptide exit tunnel.

Authors:  N R Voss; M Gerstein; T A Steitz; P B Moore
Journal:  J Mol Biol       Date:  2006-05-30       Impact factor: 5.469

3.  Anisotropic deformation response of single protein molecules.

Authors:  Hendrik Dietz; Felix Berkemeier; Morten Bertz; Matthias Rief
Journal:  Proc Natl Acad Sci U S A       Date:  2006-08-14       Impact factor: 11.205

4.  Charge Interactions Can Dominate Coupled Folding and Binding on the Ribosome.

Authors:  Jacopo Marino; Karin J Buholzer; Franziska Zosel; Daniel Nettels; Benjamin Schuler
Journal:  Biophys J       Date:  2018-08-15       Impact factor: 4.033

5.  Origins of the Mechanochemical Coupling of Peptide Bond Formation to Protein Synthesis.

Authors:  Benjamin Fritch; Andrey Kosolapov; Phillip Hudson; Daniel A Nissley; H Lee Woodcock; Carol Deutsch; Edward P O'Brien
Journal:  J Am Chem Soc       Date:  2018-04-06       Impact factor: 15.419

6.  Cytoplasmic streaming in plant cells emerges naturally by microfilament self-organization.

Authors:  Francis G Woodhouse; Raymond E Goldstein
Journal:  Proc Natl Acad Sci U S A       Date:  2013-08-12       Impact factor: 11.205

7.  SecM-stalled ribosomes adopt an altered geometry at the peptidyl transferase center.

Authors:  Shashi Bhushan; Thomas Hoffmann; Birgit Seidelt; Jens Frauenfeld; Thorsten Mielke; Otto Berninghausen; Daniel N Wilson; Roland Beckmann
Journal:  PLoS Biol       Date:  2011-01-18       Impact factor: 8.029

8.  Charge-driven dynamics of nascent-chain movement through the SecYEG translocon.

Authors:  Nurzian Ismail; Rickard Hedman; Martin Lindén; Gunnar von Heijne
Journal:  Nat Struct Mol Biol       Date:  2015-01-05       Impact factor: 15.369

Review 9.  Mechanochemistry as an emerging tool for molecular synthesis: what can it offer?

Authors:  Joseph L Howard; Qun Cao; Duncan L Browne
Journal:  Chem Sci       Date:  2018-03-07       Impact factor: 9.825

10.  Investigating the Effect of Chain Connectivity on the Folding of a Beta-Sheet Protein On and Off the Ribosome.

Authors:  Andrew P Marsden; Jeffrey J Hollins; Charles O'Neill; Pavel Ryzhov; Sally Higson; Carolina A T F Mendonça; Tristan O Kwan; Lee Gyan Kwa; Annette Steward; Jane Clarke
Journal:  J Mol Biol       Date:  2018-10-23       Impact factor: 5.469

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  8 in total

1.  Cotranslational folding stimulates programmed ribosomal frameshifting in the alphavirus structural polyprotein.

Authors:  Haley R Harrington; Matthew H Zimmer; Laura M Chamness; Veronica Nash; Wesley D Penn; Thomas F Miller; Suchetana Mukhopadhyay; Jonathan P Schlebach
Journal:  J Biol Chem       Date:  2020-03-13       Impact factor: 5.157

Review 2.  Regulators of Viral Frameshifting: More Than RNA Influences Translation Events.

Authors:  Wesley D Penn; Haley R Harrington; Jonathan P Schlebach; Suchetana Mukhopadhyay
Journal:  Annu Rev Virol       Date:  2020-06-29       Impact factor: 10.431

3.  Folding and Evolution of a Repeat Protein on the Ribosome.

Authors:  José Alberto León-González; Perline Flatet; María Soledad Juárez-Ramírez; José Arcadio Farías-Rico
Journal:  Front Mol Biosci       Date:  2022-05-30

4.  Forcing the ribosome to change its message.

Authors:  Sarah E Leininger; Carol Deutsch; Edward P O'Brien
Journal:  J Biol Chem       Date:  2020-05-15       Impact factor: 5.157

5.  Force transduction creates long-ranged coupling in ribosomes stalled by arrest peptides.

Authors:  Matthew H Zimmer; Michiel J M Niesen; Thomas F Miller
Journal:  Biophys J       Date:  2021-04-29       Impact factor: 3.699

6.  Residue-by-residue analysis of cotranslational membrane protein integration in vivo.

Authors:  Felix Nicolaus; Ane Metola; Daphne Mermans; Amanda Liljenström; Ajda Krč; Salmo Mohammed Abdullahi; Matthew Zimmer; Thomas F Miller Iii; Gunnar von Heijne
Journal:  Elife       Date:  2021-02-08       Impact factor: 8.140

7.  Pathway of Hsp70 interactions at the ribosome.

Authors:  Kanghyun Lee; Thomas Ziegelhoffer; Wojciech Delewski; Scott E Berger; Grzegorz Sabat; Elizabeth A Craig
Journal:  Nat Commun       Date:  2021-09-27       Impact factor: 14.919

8.  Coordination of -1 programmed ribosomal frameshifting by transcript and nascent chain features revealed by deep mutational scanning.

Authors:  Patrick J Carmody; Matthew H Zimmer; Charles P Kuntz; Haley R Harrington; Kate E Duckworth; Wesley D Penn; Suchetana Mukhopadhyay; Thomas F Miller; Jonathan P Schlebach
Journal:  Nucleic Acids Res       Date:  2021-12-16       Impact factor: 16.971

  8 in total

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