Literature DB >> 19595805

A structural view on the mechanism of the ribosome-catalyzed peptide bond formation.

Miljan Simonović1, Thomas A Steitz.   

Abstract

The ribosome is a large ribonucleoprotein particle that translates genetic information encoded in mRNA into specific proteins. Its highly conserved active site, the peptidyl-transferase center (PTC), is located on the large (50S) ribosomal subunit and is comprised solely of rRNA, which makes the ribosome the only natural ribozyme with polymerase activity. The last decade witnessed a rapid accumulation of atomic-resolution structural data on both ribosomal subunits as well as on the entire ribosome. This has allowed studies on the mechanism of peptide bond formation at a level of detail that surpasses that for the classical protein enzymes. A current understanding of the mechanism of the ribosome-catalyzed peptide bond formation is the focus of this review. Implications on the mechanism of peptide release are discussed as well.

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Year:  2009        PMID: 19595805      PMCID: PMC2783306          DOI: 10.1016/j.bbagrm.2009.06.006

Source DB:  PubMed          Journal:  Biochim Biophys Acta        ISSN: 0006-3002


  114 in total

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Authors:  R Beckmann; C M Spahn; N Eswar; J Helmers; P A Penczek; A Sali; J Frank; G Blobel
Journal:  Cell       Date:  2001-11-02       Impact factor: 41.582

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Authors:  Kirill B Gromadski; Marina V Rodnina
Journal:  Mol Cell       Date:  2004-01-30       Impact factor: 17.970

3.  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

4.  Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis.

Authors:  Elizabeth Villa; Jayati Sengupta; Leonardo G Trabuco; Jamie LeBarron; William T Baxter; Tanvir R Shaikh; Robert A Grassucci; Poul Nissen; Måns Ehrenberg; Klaus Schulten; Joachim Frank
Journal:  Proc Natl Acad Sci U S A       Date:  2009-01-02       Impact factor: 11.205

5.  A model for how ribosomal release factors induce peptidyl-tRNA cleavage in termination of protein synthesis.

Authors:  Stefan Trobro; Johan Aqvist
Journal:  Mol Cell       Date:  2007-09-07       Impact factor: 17.970

6.  A tripeptide 'anticodon' deciphers stop codons in messenger RNA.

Authors:  K Ito; M Uno; Y Nakamura
Journal:  Nature       Date:  2000-02-10       Impact factor: 49.962

7.  Entropic contributions to rate accelerations in enzymic and intramolecular reactions and the chelate effect.

Authors:  M I Page; W P Jencks
Journal:  Proc Natl Acad Sci U S A       Date:  1971-08       Impact factor: 11.205

8.  Ribosome structure determined by electron microscopy of Escherichia coli small subunits, large subunits and monomeric ribosomes.

Authors:  J A Lake
Journal:  J Mol Biol       Date:  1976-07-25       Impact factor: 5.469

Review 9.  The different roles of tryptophan transfer RNA in regulating trp operon expression in E. coli versus B. subtilis.

Authors:  Charles Yanofsky
Journal:  Trends Genet       Date:  2004-08       Impact factor: 11.639

10.  Insights into translational termination from the structure of RF2 bound to the ribosome.

Authors:  Albert Weixlbaumer; Hong Jin; Cajetan Neubauer; Rebecca M Voorhees; Sabine Petry; Ann C Kelley; Venki Ramakrishnan
Journal:  Science       Date:  2008-11-07       Impact factor: 47.728

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  26 in total

1.  Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution.

Authors:  Jean-Paul Armache; Alexander Jarasch; Andreas M Anger; Elizabeth Villa; Thomas Becker; Shashi Bhushan; Fabrice Jossinet; Michael Habeck; Gülcin Dindar; Sibylle Franckenberg; Viter Marquez; Thorsten Mielke; Michael Thomm; Otto Berninghausen; Birgitta Beatrix; Johannes Söding; Eric Westhof; Daniel N Wilson; Roland Beckmann
Journal:  Proc Natl Acad Sci U S A       Date:  2010-10-27       Impact factor: 11.205

Review 2.  Long non-coding RNAs in corticogenesis: deciphering the non-coding code of the brain.

Authors:  Julieta Aprea; Federico Calegari
Journal:  EMBO J       Date:  2015-10-29       Impact factor: 11.598

Review 3.  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

4.  CRM1 controls the composition of nucleoplasmic pre-snoRNA complexes to licence them for nucleolar transport.

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Journal:  EMBO J       Date:  2011-04-26       Impact factor: 11.598

Review 5.  The ribosome challenge to the RNA world.

Authors:  Jessica C Bowman; Nicholas V Hud; Loren Dean Williams
Journal:  J Mol Evol       Date:  2015-03-05       Impact factor: 2.395

Review 6.  Relating Structure and Dynamics in RNA Biology.

Authors:  Kevin P Larsen; Junhong Choi; Arjun Prabhakar; Elisabetta Viani Puglisi; Joseph D Puglisi
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-07-01       Impact factor: 10.005

7.  Mechanisms of SecM-mediated stalling in the ribosome.

Authors:  James Gumbart; Eduard Schreiner; Daniel N Wilson; Roland Beckmann; Klaus Schulten
Journal:  Biophys J       Date:  2012-07-17       Impact factor: 4.033

8.  Mutational characterization and mapping of the 70S ribosome active site.

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Review 9.  Resistance to Macrolide Antibiotics in Public Health Pathogens.

Authors:  Corey Fyfe; Trudy H Grossman; Kathy Kerstein; Joyce Sutcliffe
Journal:  Cold Spring Harb Perspect Med       Date:  2016-10-03       Impact factor: 6.915

10.  Structural insight into nascent polypeptide chain-mediated translational stalling.

Authors:  Birgit Seidelt; C Axel Innis; Daniel N Wilson; Marco Gartmann; Jean-Paul Armache; Elizabeth Villa; Leonardo G Trabuco; Thomas Becker; Thorsten Mielke; Klaus Schulten; Thomas A Steitz; Roland Beckmann
Journal:  Science       Date:  2009-10-29       Impact factor: 47.728

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