Literature DB >> 29903714

New Insights into Ribosome Structure and Function.

Amy Jobe1, Zheng Liu1, Cristina Gutierrez-Vargas2, Joachim Frank1,2.   

Abstract

In the past 4 years, because of the advent of new cameras, many ribosome structures have been solved by cryoelectron microscopy (cryo-EM) at high, often near-atomic resolution, bringing new mechanistic insights into the processes of translation initiation, peptide elongation, termination, and recycling. Thus, cryo-EM has joined X-ray crystallography as a powerful technique in structural studies of translation. The significance of this new development is that structures of ribosomes in complex with their functional binding partners can now be determined to high resolution in multiple states as they perform their work. The aim of this article is to provide an overview of these new studies and assess the contributions they have made toward an understanding of translation and translational control.
Copyright © 2019 Cold Spring Harbor Laboratory Press; all rights reserved.

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Year:  2019        PMID: 29903714      PMCID: PMC6314068          DOI: 10.1101/cshperspect.a032615

Source DB:  PubMed          Journal:  Cold Spring Harb Perspect Biol        ISSN: 1943-0264            Impact factor:   10.005


  106 in total

1.  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

2.  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

3.  The helicase protein DHX29 promotes translation initiation, cell proliferation, and tumorigenesis.

Authors:  Armen Parsyan; David Shahbazian; Yvan Martineau; Emmanuel Petroulakis; Tommy Alain; Ola Larsson; Geraldine Mathonnet; Gritta Tettweiler; Christopher U Hellen; Tatyana V Pestova; Yuri V Svitkin; Nahum Sonenberg
Journal:  Proc Natl Acad Sci U S A       Date:  2009-12-11       Impact factor: 11.205

Review 4.  The structure and function of the eukaryotic ribosome.

Authors:  Daniel N Wilson; Jamie H Doudna Cate
Journal:  Cold Spring Harb Perspect Biol       Date:  2012-05-01       Impact factor: 10.005

5.  Cryo-EM of ribosomal 80S complexes with termination factors reveals the translocated cricket paralysis virus IRES.

Authors:  Margarita Muhs; Tarek Hilal; Thorsten Mielke; Maxim A Skabkin; Karissa Y Sanbonmatsu; Tatyana V Pestova; Christian M T Spahn
Journal:  Mol Cell       Date:  2015-01-15       Impact factor: 17.970

Review 6.  Navigating the ribosome's metastable energy landscape.

Authors:  James B Munro; Kevin Y Sanbonmatsu; Christian M T Spahn; Scott C Blanchard
Journal:  Trends Biochem Sci       Date:  2009-08-03       Impact factor: 13.807

7.  2.8-Å Cryo-EM Structure of the Large Ribosomal Subunit from the Eukaryotic Parasite Leishmania.

Authors:  Moran Shalev-Benami; Yan Zhang; Donna Matzov; Yehuda Halfon; Arie Zackay; Haim Rozenberg; Ella Zimmerman; Anat Bashan; Charles L Jaffe; Ada Yonath; Georgios Skiniotis
Journal:  Cell Rep       Date:  2016-06-30       Impact factor: 9.423

8.  The structure of the eukaryotic ribosome at 3.0 Å resolution.

Authors:  Adam Ben-Shem; Nicolas Garreau de Loubresse; Sergey Melnikov; Lasse Jenner; Gulnara Yusupova; Marat Yusupov
Journal:  Science       Date:  2011-11-17       Impact factor: 47.728

9.  The ribosome triggers the stringent response by RelA via a highly distorted tRNA.

Authors:  Xabier Agirrezabala; Israel S Fernández; Ann C Kelley; David Gil Cartón; Venki Ramakrishnan; Mikel Valle
Journal:  EMBO Rep       Date:  2013-07-23       Impact factor: 8.807

10.  Fluctuations between multiple EF-G-induced chimeric tRNA states during translocation on the ribosome.

Authors:  Sarah Adio; Tamara Senyushkina; Frank Peske; Niels Fischer; Wolfgang Wintermeyer; Marina V Rodnina
Journal:  Nat Commun       Date:  2015-06-15       Impact factor: 14.919

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  9 in total

Review 1.  Toward a Kinetic Understanding of Eukaryotic Translation.

Authors:  Masaaki Sokabe; Christopher S Fraser
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-02-01       Impact factor: 10.005

Review 2.  Translation Elongation and Recoding in Eukaryotes.

Authors:  Thomas E Dever; Jonathan D Dinman; Rachel Green
Journal:  Cold Spring Harb Perspect Biol       Date:  2018-08-01       Impact factor: 10.005

Review 3.  Single-Molecule Fluorescence Applied to Translation.

Authors:  Arjun Prabhakar; Elisabetta Viani Puglisi; Joseph D Puglisi
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-01-02       Impact factor: 10.005

4.  RNAspider: a webserver to analyze entanglements in RNA 3D structures.

Authors:  Kamil Luwanski; Vladyslav Hlushchenko; Mariusz Popenda; Tomasz Zok; Joanna Sarzynska; Daniil Martsich; Marta Szachniuk; Maciej Antczak
Journal:  Nucleic Acids Res       Date:  2022-03-29       Impact factor: 19.160

5.  Selective translation by alternative bacterial ribosomes.

Authors:  Yu-Xiang Chen; Zhi-Yu Xu; Xueliang Ge; Suparna Sanyal; Zhi John Lu; Babak Javid
Journal:  Proc Natl Acad Sci U S A       Date:  2020-07-28       Impact factor: 11.205

Review 6.  Getting to the bottom of lncRNA mechanism: structure-function relationships.

Authors:  Karissa Sanbonmatsu
Journal:  Mamm Genome       Date:  2021-10-12       Impact factor: 3.224

Review 7.  Isotope Labels Combined with Solution NMR Spectroscopy Make Visible the Invisible Conformations of Small-to-Large RNAs.

Authors:  Theodore K Dayie; Lukasz T Olenginski; Kehinde M Taiwo
Journal:  Chem Rev       Date:  2022-04-20       Impact factor: 72.087

8.  Computational Pipeline for Reference-Free Comparative Analysis of RNA 3D Structures Applied to SARS-CoV-2 UTR Models.

Authors:  Julita Gumna; Maciej Antczak; Ryszard W Adamiak; Janusz M Bujnicki; Shi-Jie Chen; Feng Ding; Pritha Ghosh; Jun Li; Sunandan Mukherjee; Chandran Nithin; Katarzyna Pachulska-Wieczorek; Almudena Ponce-Salvatierra; Mariusz Popenda; Joanna Sarzynska; Tomasz Wirecki; Dong Zhang; Sicheng Zhang; Tomasz Zok; Eric Westhof; Zhichao Miao; Marta Szachniuk; Agnieszka Rybarczyk
Journal:  Int J Mol Sci       Date:  2022-08-25       Impact factor: 6.208

Review 9.  Expanding Role of Ubiquitin in Translational Control.

Authors:  Shannon E Dougherty; Austin O Maduka; Toshifumi Inada; Gustavo M Silva
Journal:  Int J Mol Sci       Date:  2020-02-09       Impact factor: 5.923

  9 in total

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