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  New features of the ribosome and ribosomal inhibitors: non-enzymatic recycling, misreading and back-translocation

Szaflarski, W., Vesper, O., Teraoka, Y., Plitta, B., Wilson, D. N., & Nierhaus, K. H. (2008). New features of the ribosome and ribosomal inhibitors: non-enzymatic recycling, misreading and back-translocation. Journal of Molecular Biology, 380(1), 193-205. doi:10.1016/j.jmb.2008.04.060.

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Genre: Journal Article
Alternative Title : J Mol Biol

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 Creators:
Szaflarski, Witold1, Author              
Vesper, Oliver1, Author              
Teraoka, Yoshika2, Author
Plitta, Beata2, Author
Wilson, Daniel N.3, Author              
Nierhaus, Knud H.1, Author              
Affiliations:
1Ribosomes, Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433558              
2Max Planck Society, ou_persistent13              
3Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433550              

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Free keywords: aminoglycosides; NRI drug, naphthyridine, inhibition mechanism; optimal poly(Phe) synthesis system; recycling of ribosomes; back-translocation
 Abstract: We describe the optimization of a poly(Phe) synthesis system, the conditions of which have been applied for efficient translation of heteropolymeric mRNAs. Here we identify two parameters that are essential to obtain translation at efficiency and accuracy levels equivalent to those in vivo, viz., the fine-tuning of the energy-rich components with an acetyl–phosphate substrate for energy regeneration, as well as the ionic conditions. Applying this system revealed a number of new features: (i) 70S ribosomes are able to recycle within 300 s in a non-enzymatic fashion in the absence of tmRNA. This observation might explain the fact that a knockout of the tmRNA gene ssrA is not lethal for Escherichia coli cells in contrast to other bacterial strains, such as Bacillus subtilis. (ii) The high efficiency of the system was exploited to analyze the misincorporation of various amino acids (resolution limit = 1:15,000). No misreading was observed at the middle codon position and only marginal effects were observed at the first one (even when misreading was artificially stimulated 20- to 30-fold), yielding an improved definition of the near-cognate and non-cognate aminoacyl-tRNAs. (iii) Aminoglycosides increase Phe and Lys incorporation about 2-fold in the presence of poly(U) or poly(UUC) and poly(A), respectively, and induce a back-translocation (except hygromycin B) exclusively in the absence of EF-G•GTP, as do the non-related drugs viomycin and edeine.

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Language(s): eng - English
 Dates: 2008-06-27
 Publication Status: Published in print
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Title: Journal of Molecular Biology
  Alternative Title : J Mol Biol
Source Genre: Journal
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Pages: - Volume / Issue: 380 (1) Sequence Number: - Start / End Page: 193 - 205 Identifier: -