ArticleProceedings of the National Academy of Sciences of the United States of America2026
Nucleic acid base pair open states by hydrogen exchange.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.
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1 citing paper in PubMed.
- Ubiquitous low-energy RNA fluctuations and energetic coupling measured by chemical probing.bioRxiv : the preprint server for biology · 2026Article
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Abstract
Nucleic acid base pair open states that are actively driven to expose normally hidden sequences and host reactions with processing proteins have been highly studied. However, the spontaneous natural base pair opening behavior of native duplexes is still not understood. Hydrogen exchange (HX) experiments can measure the kinetic and equilibrium parameters of base pair opening reactions, but different approaches have led to discrepant datasets and opposing views of nucleic acid structural dynamics. Here, I reexamine the data and resolve these long-standing contradictory views. The conclusion is that the seemingly contradictory datasets characterize two different modes of base pair opening reactions that, for identifiable reasons, are selectively accessed by the different methods and molecular models used. H-T exchange of DNA, duplex RNA, and long synthetic duplexes is dominated by large multi-base-pair openings with reclosing times of milliseconds (kcl ~20/sec) and surprisingly high population (Kop ~10
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