Literature DB >> 18614050

Different aa-tRNAs are selected uniformly on the ribosome.

Sarah Ledoux1, Olke C Uhlenbeck.   

Abstract

Ten E. coli aminoacyl-tRNAs (aa-tRNAs) were assessed for their ability to decode cognate codons on E. coli ribosomes by using three assays that evaluate the key steps in the decoding pathway. Despite a wide variety of structural features, each aa-tRNA exhibited similar kinetic and thermodynamic properties in each assay. This surprising kinetic and thermodynamic uniformity is likely to reflect the importance of ribosome conformational changes in defining the rates and affinities of the decoding process as well as the evolutionary "tuning" of each aa-tRNA sequence to modify their individual interactions with the ribosome at each step.

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Year:  2008        PMID: 18614050      PMCID: PMC2709977          DOI: 10.1016/j.molcel.2008.04.026

Source DB:  PubMed          Journal:  Mol Cell        ISSN: 1097-2765            Impact factor:   17.970


  65 in total

1.  Recognition of cognate transfer RNA by the 30S ribosomal subunit.

Authors:  J M Ogle; D E Brodersen; W M Clemons ; M J Tarry; A P Carter; V Ramakrishnan
Journal:  Science       Date:  2001-05-04       Impact factor: 47.728

2.  Simulating movement of tRNA into the ribosome during decoding.

Authors:  Kevin Y Sanbonmatsu; Simpson Joseph; Chang-Shung Tung
Journal:  Proc Natl Acad Sci U S A       Date:  2005-10-25       Impact factor: 11.205

3.  The involvement of two distinct regions of 23 S ribosomal RNA in tRNA selection.

Authors:  M O'Connor; A E Dahlberg
Journal:  J Mol Biol       Date:  1995-12-15       Impact factor: 5.469

4.  Codon pair utilization biases influence translational elongation step times.

Authors:  B Irwin; J D Heck; G W Hatfield
Journal:  J Biol Chem       Date:  1995-09-29       Impact factor: 5.157

5.  Large-scale purification of a stable form of recombinant tobacco etch virus protease.

Authors:  L J Lucast; R T Batey; J A Doudna
Journal:  Biotechniques       Date:  2001-03       Impact factor: 1.993

6.  Uniform binding of aminoacyl-tRNAs to elongation factor Tu by thermodynamic compensation.

Authors:  F J LaRiviere; A D Wolfson; O C Uhlenbeck
Journal:  Science       Date:  2001-10-05       Impact factor: 47.728

7.  The tRNA specificity of Thermus thermophilus EF-Tu.

Authors:  Haruichi Asahara; Olke C Uhlenbeck
Journal:  Proc Natl Acad Sci U S A       Date:  2002-03-12       Impact factor: 11.205

8.  Codon choice and gene expression: synonymous codons differ in their ability to direct aminoacylated-transfer RNA binding to ribosomes in vitro.

Authors:  L K Thomas; D B Dix; R C Thompson
Journal:  Proc Natl Acad Sci U S A       Date:  1988-06       Impact factor: 11.205

9.  Relevance of histidine-84 in the elongation factor Tu GTPase activity and in poly(Phe) synthesis: its substitution by glutamine and alanine.

Authors:  G Scarano; I M Krab; V Bocchini; A Parmeggiani
Journal:  FEBS Lett       Date:  1995-05-29       Impact factor: 4.124

Review 10.  Synonymous codon usage in bacteria.

Authors:  M D Ermolaeva
Journal:  Curr Issues Mol Biol       Date:  2001-10       Impact factor: 2.081

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  52 in total

Review 1.  Evolutionary optimization of speed and accuracy of decoding on the ribosome.

Authors:  Ingo Wohlgemuth; Corinna Pohl; Joerg Mittelstaet; Andrey L Konevega; Marina V Rodnina
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2011-10-27       Impact factor: 6.237

2.  Kinetic basis for global loss of fidelity arising from mismatches in the P-site codon:anticodon helix.

Authors:  Hani S Zaher; Rachel Green
Journal:  RNA       Date:  2010-08-19       Impact factor: 4.942

3.  Missense suppressor mutations in 16S rRNA reveal the importance of helices h8 and h14 in aminoacyl-tRNA selection.

Authors:  Sean P McClory; Joshua M Leisring; Daoming Qin; Kurt Fredrick
Journal:  RNA       Date:  2010-08-10       Impact factor: 4.942

Review 4.  Divergent stalling sequences sense and control cellular physiology.

Authors:  Koreaki Ito; Shinobu Chiba; Kit Pogliano
Journal:  Biochem Biophys Res Commun       Date:  2010-02-01       Impact factor: 3.575

5.  The codon specificity of eubacterial release factors is determined by the sequence and size of the recognition loop.

Authors:  David J Young; Christina D Edgar; Elizabeth S Poole; Warren P Tate
Journal:  RNA       Date:  2010-06-28       Impact factor: 4.942

6.  pH-sensitivity of the ribosomal peptidyl transfer reaction dependent on the identity of the A-site aminoacyl-tRNA.

Authors:  Magnus Johansson; Ka-Weng Ieong; Stefan Trobro; Peter Strazewski; Johan Åqvist; Michael Y Pavlov; Måns Ehrenberg
Journal:  Proc Natl Acad Sci U S A       Date:  2010-12-17       Impact factor: 11.205

7.  Distortion of tRNA upon near-cognate codon recognition on the ribosome.

Authors:  Joerg Mittelstaet; Andrey L Konevega; Marina V Rodnina
Journal:  J Biol Chem       Date:  2011-01-06       Impact factor: 5.157

8.  Slow peptide bond formation by proline and other N-alkylamino acids in translation.

Authors:  Michael Y Pavlov; Richard E Watts; Zhongping Tan; Virginia W Cornish; Måns Ehrenberg; Anthony C Forster
Journal:  Proc Natl Acad Sci U S A       Date:  2008-12-22       Impact factor: 11.205

Review 9.  Fidelity at the molecular level: lessons from protein synthesis.

Authors:  Hani S Zaher; Rachel Green
Journal:  Cell       Date:  2009-02-20       Impact factor: 41.582

10.  Changeability of individual domains of an aminoacyl-tRNA in polymerization by the ribosome.

Authors:  Rong Gao; Anthony C Forster
Journal:  FEBS Lett       Date:  2010-01-04       Impact factor: 4.124

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