Literature DB >> 19850913

Powering through ribosome assembly.

Bethany S Strunk1, Katrin Karbstein.   

Abstract

Ribosome assembly is required for cell growth in all organisms. Classic in vitro work in bacteria has led to a detailed understanding of the biophysical, thermodynamic, and structural basis for the ordered and correct assembly of ribosomal proteins on ribosomal RNA. Furthermore, it has enabled reconstitution of active subunits from ribosomal RNA and proteins in vitro. Nevertheless, recent work has shown that eukaryotic ribosome assembly requires a large macromolecular machinery in vivo. Many of these assembly factors such as ATPases, GTPases, and kinases hydrolyze nucleotide triphosphates. Because these enzymes are likely regulatory proteins, much work to date has focused on understanding their role in the assembly process. Here, we review these factors, as well as other sources of energy, and their roles in the ribosome assembly process. In addition, we propose roles of energy-releasing enzymes in the assembly process, to explain why energy is used for a process that occurs largely spontaneously in bacteria. Finally, we use literature data to suggest testable models for how these enzymes could be used as targets for regulation of ribosome assembly.

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Year:  2009        PMID: 19850913      PMCID: PMC2779681          DOI: 10.1261/rna.1792109

Source DB:  PubMed          Journal:  RNA        ISSN: 1355-8382            Impact factor:   4.942


  225 in total

1.  The ATPase reaction cycle of yeast DNA topoisomerase II. Slow rates of ATP resynthesis and P(i) release.

Authors:  C L Baird; M S Gordon; D M Andrenyak; J F Marecek; J E Lindsley
Journal:  J Biol Chem       Date:  2001-05-15       Impact factor: 5.157

2.  Dbp10p, a putative RNA helicase from Saccharomyces cerevisiae, is required for ribosome biogenesis.

Authors:  F Burger; M C Daugeron; P Linder
Journal:  Nucleic Acids Res       Date:  2000-06-15       Impact factor: 16.971

3.  Functional link between ribosome formation and biogenesis of iron-sulfur proteins.

Authors:  Alexander Yarunin; Vikram Govind Panse; Elisabeth Petfalski; Christophe Dez; David Tollervey; Eduard C Hurt
Journal:  EMBO J       Date:  2005-01-20       Impact factor: 11.598

4.  Biogenesis of cytosolic ribosomes requires the essential iron-sulphur protein Rli1p and mitochondria.

Authors:  Gyula Kispal; Katalin Sipos; Heike Lange; Zsuzsanna Fekete; Tibor Bedekovics; Tamás Janáky; Jochen Bassler; Daili J Aguilar Netz; Janneke Balk; Carmen Rotte; Roland Lill
Journal:  EMBO J       Date:  2005-01-20       Impact factor: 11.598

5.  Release of the export adapter, Nmd3p, from the 60S ribosomal subunit requires Rpl10p and the cytoplasmic GTPase Lsg1p.

Authors:  John Hedges; Matthew West; Arlen W Johnson
Journal:  EMBO J       Date:  2005-01-20       Impact factor: 11.598

6.  Rea1, a dynein-related nuclear AAA-ATPase, is involved in late rRNA processing and nuclear export of 60 S subunits.

Authors:  Kyriaki Galani; T Amar Nissan; Elisabeth Petfalski; David Tollervey; Ed Hurt
Journal:  J Biol Chem       Date:  2004-11-03       Impact factor: 5.157

7.  The essential protein fap7 is involved in the oxidative stress response of Saccharomyces cerevisiae.

Authors:  H Juhnke; C Charizanis; F Latifi; B Krems; K D Entian
Journal:  Mol Microbiol       Date:  2000-02       Impact factor: 3.501

8.  Structural and mutational analysis of the SBDS protein family. Insight into the leukemia-associated Shwachman-Diamond Syndrome.

Authors:  Camille Shammas; Tobias F Menne; Christine Hilcenko; Stephen R Michell; Beatriz Goyenechea; Graeme R B Boocock; Peter R Durie; Johanna M Rommens; Alan J Warren
Journal:  J Biol Chem       Date:  2005-02-08       Impact factor: 5.157

9.  Nucleotide dependent motion and mechanism of action of p97/VCP.

Authors:  Byron DeLaBarre; Axel T Brunger
Journal:  J Mol Biol       Date:  2005-03-25       Impact factor: 5.469

10.  Association of yeast RNA polymerase I with a nucleolar substructure active in rRNA synthesis and processing.

Authors:  S Fath; P Milkereit; A V Podtelejnikov; N Bischler; P Schultz; M Bier; M Mann; H Tschochner
Journal:  J Cell Biol       Date:  2000-05-01       Impact factor: 10.539

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  109 in total

Review 1.  SF1 and SF2 helicases: family matters.

Authors:  Margaret E Fairman-Williams; Ulf-Peter Guenther; Eckhard Jankowsky
Journal:  Curr Opin Struct Biol       Date:  2010-04-22       Impact factor: 6.809

2.  The evolutionarily conserved protein Las1 is required for pre-rRNA processing at both ends of ITS2.

Authors:  Stéphanie Schillewaert; Ludivine Wacheul; Frédéric Lhomme; Denis L J Lafontaine
Journal:  Mol Cell Biol       Date:  2011-11-14       Impact factor: 4.272

3.  Trm112 is required for Bud23-mediated methylation of the 18S rRNA at position G1575.

Authors:  Sabine Figaro; Ludivine Wacheul; Stéphanie Schillewaert; Marc Graille; Emmeline Huvelle; Rémi Mongeard; Christiane Zorbas; Denis L J Lafontaine; Valérie Heurgué-Hamard
Journal:  Mol Cell Biol       Date:  2012-04-09       Impact factor: 4.272

4.  The Levinthal paradox of the interactome.

Authors:  Peter Tompa; George D Rose
Journal:  Protein Sci       Date:  2011-11-09       Impact factor: 6.725

Review 5.  One core, two shells: bacterial and eukaryotic ribosomes.

Authors:  Sergey Melnikov; Adam Ben-Shem; Nicolas Garreau de Loubresse; Lasse Jenner; Gulnara Yusupova; Marat Yusupov
Journal:  Nat Struct Mol Biol       Date:  2012-06-05       Impact factor: 15.369

6.  RsgA releases RbfA from 30S ribosome during a late stage of ribosome biosynthesis.

Authors:  Simon Goto; Shingo Kato; Takatsugu Kimura; Akira Muto; Hyouta Himeno
Journal:  EMBO J       Date:  2010-11-23       Impact factor: 11.598

7.  Ribosome assembly factors prevent premature translation initiation by 40S assembly intermediates.

Authors:  Bethany S Strunk; Cherisse R Loucks; Min Su; Harish Vashisth; Shanshan Cheng; Justin Schilling; Charles L Brooks; Katrin Karbstein; Georgios Skiniotis
Journal:  Science       Date:  2011-08-11       Impact factor: 47.728

8.  A translation-like cycle is a quality control checkpoint for maturing 40S ribosome subunits.

Authors:  Bethany S Strunk; Megan N Novak; Crystal L Young; Katrin Karbstein
Journal:  Cell       Date:  2012-07-06       Impact factor: 41.582

9.  Motoring toward pre-60S-ribosome export.

Authors:  Vadim Shchepachev; David Tollervey
Journal:  Nat Struct Mol Biol       Date:  2016-01       Impact factor: 15.369

10.  Dynamics of oscillatory phenotypes in Saccharomyces cerevisiae reveal a network of genome-wide transcriptional oscillators.

Authors:  Shwe L Chin; Ian M Marcus; Robert R Klevecz; Caroline M Li
Journal:  FEBS J       Date:  2012-02-27       Impact factor: 5.542

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