ArticleJournal of molecular biology2013
The non-coding B2 RNA binds to the DNA cleft and active-site region of 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 15 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
15 citing papers in PubMed, 22 citations in OpenAlex.
- Reading the SINEs - functionality in noncoding RNA 'cheap genes'.RNA biology · 2026Review
- DNMT1 inhibition by pUG-fold quadruplex RNA.RNA (New York, N.Y.) · 2023Article
- Mechanism of herpesvirus protein kinase UL13 in immune escape and viral replication.Frontiers in immunology · 2022Review
- The RNA polymerase II subunit RPB-9 recruits the integrator complex to terminate Caenorhabditis elegans piRNA transcription.The EMBO journal · 2021Article
- TDP-43 regulates transcription at protein-coding genes and Alu retrotransposons.Biochimica et biophysica acta. Gene regulatory mechanisms · 2019Article
- RNA-induced epigenetic silencing inhibits HIV-1 reactivation from latency.Retrovirology · 2018Article
- Global profiling of protein-DNA and protein-nucleosome binding affinities using quantitative mass spectrometry.Nature communications · 2018Article
- Noncoding RNA as regulators of cardiac fibrosis: current insight and the road ahead.Pflugers Archiv : European journal of physiology · 2016Review
- Article
- Repression of RNA Polymerase II Transcription by B2 RNA Depends on a Specific Pattern of Structural Regions in the RNA.Non-coding RNA · 2015Article
- Infection-Induced Retrotransposon-Derived Noncoding RNAs Enhance Herpesviral Gene Expression via the NF-κB Pathway.PLoS pathogens · 2015Article
- The persistent contributions of RNA to eukaryotic gen(om)e architecture and cellular function.Cold Spring Harbor perspectives in biology · 2014Review
- RNAs nonspecifically inhibit RNA polymerase II by preventing binding to the DNA template.RNA (New York, N.Y.) · 2014Article
- Two key arginine residues in the coat protein of Bamboo mosaic virus differentially affect the accumulation of viral genomic and subgenomic RNAs.Molecular plant pathology · 2014Article
- Chromatin-associated ncRNA activities.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2013Review
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
The B2 family of short interspersed elements is transcribed into non-coding RNA by RNA polymerase III. The ~180-nt B2 RNA has been shown to potently repress mRNA transcription by binding tightly to RNA polymerase II (Pol II) and assembling with it into complexes on promoter DNA, where it keeps the polymerase from properly engaging the promoter DNA. Mammalian Pol II is an ~500-kDa complex that contains 12 different protein subunits, providing many possible surfaces for interaction with B2 RNA. We found that the carboxy-terminal domain of the largest Pol II subunit was not required for B2 RNA to bind Pol II and repress transcription in vitro. To identify the surface on Pol II to which the minimal functional region of B2 RNA binds, we coupled multi-step affinity purification, reversible formaldehyde cross-linking, peptide sequencing by mass spectrometry, and analysis of peptide enrichment. The Pol II peptides most highly recovered after cross-linking to B2 RNA mapped to the DNA binding cleft and active-site region of Pol II. These studies determine the location of a defined nucleic acid binding site on a large, native, multi-subunit complex and provide insight into the mechanism of transcriptional repression by B2 RNA.
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Registered trials
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.