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The σ(70) region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site
The mechanisms of abortive synthesis and promoter escape during initiation of transcription are poorly understood. Here, we show that, after initiation of RNA synthesis, non-specific interaction of σ(70) region 1.2, present in all σ(70) family factors, with the non-template strand around position −4...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2013
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3632114/ https://www.ncbi.nlm.nih.gov/pubmed/23430153 http://dx.doi.org/10.1093/nar/gkt116 |
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author | Bochkareva, Aleksandra Zenkin, Nikolay |
author_facet | Bochkareva, Aleksandra Zenkin, Nikolay |
author_sort | Bochkareva, Aleksandra |
collection | PubMed |
description | The mechanisms of abortive synthesis and promoter escape during initiation of transcription are poorly understood. Here, we show that, after initiation of RNA synthesis, non-specific interaction of σ(70) region 1.2, present in all σ(70) family factors, with the non-template strand around position −4 relative to the transcription start site facilitates unwinding of the DNA duplex downstream of the transcription start site. This leads to stabilization of short RNA products and allows their extension, i.e. promoter escape. We show that this activity of σ(70) region 1.2 is assisted by the β-lobe domain, but does not involve the β′-rudder or the β′-switch-2, earlier proposed to participate in promoter escape. DNA sequence independence of this function of σ(70) region 1.2 suggests that it may be conserved in all σ(70) family factors. Our results indicate that the abortive nature of initial synthesis is caused, at least in part, by failure to open the downstream DNA by the β-lobe and σ region 1.2. |
format | Online Article Text |
id | pubmed-3632114 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2013 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-36321142013-04-22 The σ(70) region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site Bochkareva, Aleksandra Zenkin, Nikolay Nucleic Acids Res Molecular Biology The mechanisms of abortive synthesis and promoter escape during initiation of transcription are poorly understood. Here, we show that, after initiation of RNA synthesis, non-specific interaction of σ(70) region 1.2, present in all σ(70) family factors, with the non-template strand around position −4 relative to the transcription start site facilitates unwinding of the DNA duplex downstream of the transcription start site. This leads to stabilization of short RNA products and allows their extension, i.e. promoter escape. We show that this activity of σ(70) region 1.2 is assisted by the β-lobe domain, but does not involve the β′-rudder or the β′-switch-2, earlier proposed to participate in promoter escape. DNA sequence independence of this function of σ(70) region 1.2 suggests that it may be conserved in all σ(70) family factors. Our results indicate that the abortive nature of initial synthesis is caused, at least in part, by failure to open the downstream DNA by the β-lobe and σ region 1.2. Oxford University Press 2013-04 2013-02-20 /pmc/articles/PMC3632114/ /pubmed/23430153 http://dx.doi.org/10.1093/nar/gkt116 Text en © The Author(s) 2013. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/3.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Molecular Biology Bochkareva, Aleksandra Zenkin, Nikolay The σ(70) region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site |
title | The σ(70) region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site |
title_full | The σ(70) region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site |
title_fullStr | The σ(70) region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site |
title_full_unstemmed | The σ(70) region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site |
title_short | The σ(70) region 1.2 regulates promoter escape by unwinding DNA downstream of the transcription start site |
title_sort | σ(70) region 1.2 regulates promoter escape by unwinding dna downstream of the transcription start site |
topic | Molecular Biology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3632114/ https://www.ncbi.nlm.nih.gov/pubmed/23430153 http://dx.doi.org/10.1093/nar/gkt116 |
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