ArticleNucleic acids research2012
Structural transitions in the transcription elongation complexes of bacterial RNA polymerase during σ-dependent pausing.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 24 citations in OpenAlex.
- Single-molecule experiments reveal NusG displaces transcription initiation factor σ70 from mature elongation complexes.Nucleic acids research · 2026Article
- Review
- Structural and mechanistic basis of σ-dependent transcriptional pausing.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Nascent RNA sequencing identifies a widespread sigma70-dependent pausing regulated by Gre factors in bacteria.Nature communications · 2021Article
- Multisubunit RNA Polymerases of Jumbo Bacteriophages.Viruses · 2020Review
- Structural basis of Q-dependent antitermination.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Locking the nontemplate DNA to control transcription.Molecular microbiology · 2018Article
- Article
- Review
- σ38-dependent promoter-proximal pausing by bacterial RNA polymerase.Nucleic acids research · 2017Article
- Regulation of transcription elongation and termination.Biomolecules · 2015Review
- Mapping the Escherichia coli transcription elongation complex with exonuclease III.Methods in molecular biology (Clifton, N.J.) · 2015Article
- Distinct functions of the RNA polymerase σ subunit region 3.2 in RNA priming and promoter escape.Nucleic acids research · 2014Article
- E. coli 6S RNA release from RNA polymerase requires σ70 ejection by scrunching and is orchestrated by a conserved RNA hairpin.RNA (New York, N.Y.) · 2012Article
- A novel phage-encoded transcription antiterminator acts by suppressing bacterial RNA polymerase pausing.Nucleic acids research · 2012Article
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A transcription initiation factor, the σ(70) subunit of Escherichia coli RNA polymerase (RNAP) induces transcription pausing through the binding to a promoter-like pause-inducing sequence in the DNA template during transcription elongation. Here, we investigated the mechanism of σ-dependent pausing using reconstituted transcription elongation complexes which allowed highly efficient and precisely controlled pause formation. We demonstrated that, following engagement of the σ subunit to the pause site, RNAP continues RNA synthesis leading to formation of stressed elongation complexes, in which the nascent RNA remains resistant to Gre-induced cleavage while the transcription bubble and RNAP footprint on the DNA template extend in downstream direction, likely accompanied by DNA scrunching. The stressed complexes can then either break σ-mediated contacts and continue elongation or isomerize to a backtracked conformation. Suppressing of the RNAP backtracking decreases pausing and increases productive elongation. On the contrary, core RNAP mutations that impair RNAP interactions with the downstream part of the DNA template stimulate pausing, presumably by destabilizing the stressed complexes. We propose that interplay between DNA scrunching and RNAP backtracking may have an essential role in transcription pausing and its regulation in various systems.
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