ArticleJournal of molecular biology2013
Intrinsic translocation barrier as an initial step in pausing by RNA polymerase II.
Article in Journal of molecular biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- ELOF1 is a core component of the promoter-proximal paused RNA polymerase II complex.bioRxiv : the preprint server for biology · 2026Article
- Structural basis of pausing during transcription initiation in mycobacterium tuberculosis.Nature communications · 2026Article
- DSIF factor Spt5 coordinates transcription, maturation and exoribonucleolysis of RNA polymerase II transcripts.Nature communications · 2025Article
- Robust regulation of transcription pausing inProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Control of Transcription Initiation by Biased Thermal Fluctuations on Repetitive Genomic Sequences.Biomolecules · 2020Article
- Critical Role of Transcript Cleavage in Arabidopsis RNA Polymerase II Transcriptional Elongation.The Plant cell · 2020Article
- Elongation Factor TFIIS Prevents Transcription Stress and R-Loop Accumulation to Maintain Genome Stability.Molecular cell · 2019Article
- The Mechanisms of Substrate Selection, Catalysis, and Translocation by the Elongating RNA Polymerase.Journal of molecular biology · 2019Review
- Mechanisms of Transcriptional Pausing in Bacteria.Journal of molecular biology · 2019Review
- The Role of Pyrophosphorolysis in the Initiation-to-Elongation Transition by E. coli RNA Polymerase.Journal of molecular biology · 2019Article
- TFS and Spt4/5 accelerate transcription through archaeal histone-based chromatin.Molecular microbiology · 2019Article
- Article
- Pause sequences facilitate entry into long-lived paused states by reducing RNA polymerase transcription rates.Nature communications · 2018Article
- Polymerase pausing induced by sequence-specific RNA-binding protein drives heterochromatin assembly.Genes & development · 2018Article
- RNA-DNA and DNA-DNA base-pairing at the upstream edge of the transcription bubble regulate translocation of RNA polymerase and transcription rate.Nucleic acids research · 2018Article
- Control of transcriptional pausing by biased thermal fluctuations on repetitive genomic sequences.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Bridge helix bending promotes RNA polymerase II backtracking through a critical and conserved threonine residue.Nature communications · 2016Article
- A Two-Way Street: Regulatory Interplay between RNA Polymerase and Nascent RNA Structure.Trends in biochemical sciences · 2016Review
- Two transcription pause elements underlie a σ70-dependent pause cycle.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Visualizing translocation dynamics and nascent transcript errors in paused RNA polymerases in vivo.Genome biology · 2015Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Pausing of RNA polymerase II (RNAP II) by backtracking on DNA is a major regulatory mechanism in control of eukaryotic transcription. Backtracking occurs by extrusion of the 3' end of the RNA from the active center after bond formation and before translocation of RNAP II on DNA. In several documented cases, backtracking requires a special signal such as A/T-rich sequences forming an unstable RNA-DNA hybrid in the elongation complex. However, other sequence-dependent backtracking signals and conformations of RNAP II leading to backtracking remain unknown. Here, we demonstrate with S. cerevisiae RNAP II that a cleavage-deficient elongation factor TFIIS (TFIIS(AA)) enhances backtracked pauses during regular transcription. This is due to increased efficiency of formation of an intermediate that leads to backtracking. This intermediate may involve misalignment at the 3' end of the nascent RNA in the active center of the yeast RNAP II, and TFIIS(AA) promotes formation of this intermediate at the DNA sequences, presenting a high-energy barrier to translocation. We proposed a three-step mechanism for RNAP II pausing in which a prolonged dwell time in the pre-translocated state increases the likelihood of the 3' RNA end misalignment facilitating a backtrack pausing. These results demonstrate an important role of the intrinsic blocks to forward translocation in pausing by RNAP II.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.