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A hyper-mutant of the unusual σ70-Pr promoter bypasses synergistic ppGpp/DksA co-stimulation
Umeå University, Faculty of Science and Technology, Department of Molecular Biology (Faculty of Science and Technology).
Umeå University, Faculty of Science and Technology, Department of Molecular Biology (Faculty of Science and Technology).
Umeå University, Faculty of Science and Technology, Department of Molecular Biology (Faculty of Science and Technology).
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2011 (English)In: Nucleic Acids Research, ISSN 0305-1048, E-ISSN 1362-4962, Vol. 39, no 14, 5853-5865 p.Article in journal (Refereed) Published
Abstract [en]

The activities of promoters can be temporally and conditionally regulated by mechanisms other than classical DNA-binding repressors and activators. One example is the inherently weak σ70-dependent Pr promoter that ultimately controls catabolism of phenolic compounds. The activity of Pr is up-regulated through the joint action of ppGpp and DksA that enhance the performance of RNA polymerase at this promoter. Here, we report a mutagenesis analysis that revealed substantial differences between Pr and other ppGpp/DksA co-stimulated promoters. In vitro transcription and RNA polymerase binding assays show that it is the T at the −11 position of the extremely suboptimal −10 element of Pr that underlies both poor binding of σ70-RNAP and a slow rate of open complex formation—the process that is accelerated by ppGpp and DksA. Our findings support the idea that collaborative action of ppGpp and DksA lowers the rate-limiting transition energy required for conversion between intermediates on the road to open complex formation.

Place, publisher, year, edition, pages
London: Information Retrieval Ltd , 2011. Vol. 39, no 14, 5853-5865 p.
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Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:umu:diva-43229DOI: 10.1093/nar/gkr167PubMedID: 21447563OAI: oai:DiVA.org:umu-43229DiVA: diva2:412394
Available from: 2011-04-22 Created: 2011-04-22 Last updated: 2017-12-11Bibliographically approved

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Del Peso-Santos, TeresaBernardo, Lisandro M DSkärfstad, EleonoreHolmfeldt, LindaTogneri, PeterShingler, Victoria
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Nucleic Acids Research
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