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Dynamic pathways of -1 translational frameshifting

Spontaneous changes in the reading frame of translation are rare (frequency of 10(−3) – 10(−4) per codon)(1), but can be induced by specific features in the messenger RNA (mRNA). In the presence of mRNA secondary structures, a heptanucleotide “slippery sequence” usually defined by the motif X XXY YY...

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Autores principales: Chen, Jin, Petrov, Alexey, Johansson, Magnus, Tsai, Albert, O’Leary, Seán E., Puglisi, Joseph D.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4472451/
https://www.ncbi.nlm.nih.gov/pubmed/24919156
http://dx.doi.org/10.1038/nature13428
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author Chen, Jin
Petrov, Alexey
Johansson, Magnus
Tsai, Albert
O’Leary, Seán E.
Puglisi, Joseph D.
author_facet Chen, Jin
Petrov, Alexey
Johansson, Magnus
Tsai, Albert
O’Leary, Seán E.
Puglisi, Joseph D.
author_sort Chen, Jin
collection PubMed
description Spontaneous changes in the reading frame of translation are rare (frequency of 10(−3) – 10(−4) per codon)(1), but can be induced by specific features in the messenger RNA (mRNA). In the presence of mRNA secondary structures, a heptanucleotide “slippery sequence” usually defined by the motif X XXY YYZ, and (in some prokaryotic cases) mRNA sequences that base pair with the 3′ end of the 16S ribosomal rRNA (internal Shine-Dalgarno (SD) sequences), there is an increased probability that a specific programmed change of frame occurs, wherein the ribosome shifts one nucleotide backwards into an overlapping reading frame (−1 frame) and continues by translating a new sequence of amino acids(2,3). Despite extensive biochemical and genetic studies, there is no clear mechanistic description for frameshifting. Here, we apply single-molecule fluorescence to track the compositional and conformational dynamics of the individual ribosomes at each codon during translation of a frameshift-inducing mRNA from the dnaX gene in Escherichia coli. Ribosomes that frameshift into the −1 frame are characterized by a 10-fold longer pause in elongation compared to non-frameshifted ribosomes, which translate through unperturbed. During the pause, interactions of the ribosome with the mRNA stimulatory elements uncouple EF-G catalyzed translocation from normal ribosomal subunit reverse-rotation, leaving the ribosome in a non-canonical intersubunit rotated state with an exposed codon in the aminoacyl-tRNA site (A site). tRNA(Lys) sampling and accommodation to the empty A site either lead to the slippage of the tRNAs into the −1 frame or maintain the ribosome into the 0 frame. Our results provide a general mechanistic and conformational framework for −1 frameshifting, highlighting multiple kinetic branchpoints during elongation.
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spelling pubmed-44724512015-06-19 Dynamic pathways of -1 translational frameshifting Chen, Jin Petrov, Alexey Johansson, Magnus Tsai, Albert O’Leary, Seán E. Puglisi, Joseph D. Nature Article Spontaneous changes in the reading frame of translation are rare (frequency of 10(−3) – 10(−4) per codon)(1), but can be induced by specific features in the messenger RNA (mRNA). In the presence of mRNA secondary structures, a heptanucleotide “slippery sequence” usually defined by the motif X XXY YYZ, and (in some prokaryotic cases) mRNA sequences that base pair with the 3′ end of the 16S ribosomal rRNA (internal Shine-Dalgarno (SD) sequences), there is an increased probability that a specific programmed change of frame occurs, wherein the ribosome shifts one nucleotide backwards into an overlapping reading frame (−1 frame) and continues by translating a new sequence of amino acids(2,3). Despite extensive biochemical and genetic studies, there is no clear mechanistic description for frameshifting. Here, we apply single-molecule fluorescence to track the compositional and conformational dynamics of the individual ribosomes at each codon during translation of a frameshift-inducing mRNA from the dnaX gene in Escherichia coli. Ribosomes that frameshift into the −1 frame are characterized by a 10-fold longer pause in elongation compared to non-frameshifted ribosomes, which translate through unperturbed. During the pause, interactions of the ribosome with the mRNA stimulatory elements uncouple EF-G catalyzed translocation from normal ribosomal subunit reverse-rotation, leaving the ribosome in a non-canonical intersubunit rotated state with an exposed codon in the aminoacyl-tRNA site (A site). tRNA(Lys) sampling and accommodation to the empty A site either lead to the slippage of the tRNAs into the −1 frame or maintain the ribosome into the 0 frame. Our results provide a general mechanistic and conformational framework for −1 frameshifting, highlighting multiple kinetic branchpoints during elongation. 2014-06-11 2014-08-21 /pmc/articles/PMC4472451/ /pubmed/24919156 http://dx.doi.org/10.1038/nature13428 Text en http://www.nature.com/authors/editorial_policies/license.html#terms Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use:http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Chen, Jin
Petrov, Alexey
Johansson, Magnus
Tsai, Albert
O’Leary, Seán E.
Puglisi, Joseph D.
Dynamic pathways of -1 translational frameshifting
title Dynamic pathways of -1 translational frameshifting
title_full Dynamic pathways of -1 translational frameshifting
title_fullStr Dynamic pathways of -1 translational frameshifting
title_full_unstemmed Dynamic pathways of -1 translational frameshifting
title_short Dynamic pathways of -1 translational frameshifting
title_sort dynamic pathways of -1 translational frameshifting
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4472451/
https://www.ncbi.nlm.nih.gov/pubmed/24919156
http://dx.doi.org/10.1038/nature13428
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