ArticleJournal of the American Chemical Society2009
Urea destabilizes RNA by forming stacking interactions and multiple hydrogen bonds with nucleic acid bases.
Article in Journal of the American Chemical Society, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 87 citations in OpenAlex.
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- Application of Nucleic Acid Mimics in Fluorescence In Situ Hybridization.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Urea Derivatives in Modern Drug Discovery and Medicinal Chemistry.Journal of medicinal chemistry · 2020Article
- Urea-aromatic interactions in biology.Biophysical reviews · 2020Review
- A Widely Applicable Urea-based Fluorescent/Colorimetric mRNABio-protocol · 2019Article
- Energetic, Structural and Dynamic Properties of Nucleobase-Urea Interactions that Aid in Urea Assisted RNA Unfolding.Scientific reports · 2019Article
- Spontaneous driving forces give rise to protein-RNA condensates with coexisting phases and complex material properties.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
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- Cholinium-based Good's buffers ionic liquids as remarkable stabilizers and recyclable preservation media for recombinant small RNAs.ACS sustainable chemistry & engineering · 2018Article
- Real-time monitoring of DNA G-quadruplexes in living cells with a small-molecule fluorescent probe.Nucleic acids research · 2018Article
- MMISH: Multicolor microRNABiotechnology reports (Amsterdam, Netherlands) · 2018Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 2 countries.
Funding
Abstract
Urea titration of RNA by urea is an effective approach to investigate the forces stabilizing this biologically important molecule. We used all atom molecular dynamics simulations using two urea force fields and two RNA constructs to elucidate in atomic detail the destabilization mechanism of folded RNA in aqueous urea solutions. Urea denatures RNA by forming multiple hydrogen bonds with the RNA bases and has little influence on the phosphodiester backbone. Most significantly we discovered that urea engages in stacking interactions with the bases. We also estimate, for the first time, the m-value for RNA, which is a measure of the strength of urea-RNA interactions. Our work provides a conceptual understanding of the mechanism by which urea enhances RNA folding rates.
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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.