ArticleJournal of the American Chemical Society2012
Intrinsic contribution of the 2'-hydroxyl to RNA conformational heterogeneity.
Article in Journal of the American Chemical Society, 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.
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- CD3 aptamers promote expansion and persistence of tumor-reactive T cells for adoptive T cell therapy in cancer.Molecular therapy. Nucleic acids · 2024Article
- Chemistry, structure and function of approved oligonucleotide therapeutics.Nucleic acids research · 2023Review
- Cryo neutron crystallography demonstrates influence of RNA 2'-OH orientation on conformation, sugar pucker and water structure.Nucleic acids research · 2022Article
- Beyond ribose and phosphate: Selected nucleic acid modifications for structure-function investigations and therapeutic applications.Beilstein journal of organic chemistry · 2021Review
- Light-controlled twister ribozyme with single-molecule detection resolves RNA function in time and space.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Same fold, different properties: polarizable molecular dynamics simulations of telomeric and TERRA G-quadruplexes.Nucleic acids research · 2020Article
- Polarizable force field for RNA based on the classical drude oscillator.Journal of computational chemistry · 2018Article
- Understanding the Relative Flexibility of RNA and DNA Duplexes: Stretching and Twist-Stretch Coupling.Biophysical journal · 2017Article
- Additive CHARMM force field for naturally occurring modified ribonucleotides.Journal of computational chemistry · 2016Article
- CHARMM additive and polarizable force fields for biophysics and computer-aided drug design.Biochimica et biophysica acta · 2015Review
- Unzippers, resolvers and sensors: a structural and functional biochemistry tale of RNA helicases.International journal of molecular sciences · 2015Review
- The OPEP protein model: from single molecules, amyloid formation, crowding and hydrodynamics to DNA/RNA systems.Chemical Society reviews · 2014Review
- Improvement of DNA and RNA Sugar Pucker Profiles from Semiempirical Quantum Methods.Journal of chemical theory and computation · 2014Article
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Authors and funding
2 authors.
Funding
Abstract
Canonical duplex RNA assumes only the A-form conformation at the secondary structure level while, in contrast, a wide range of noncanonical, tertiary conformations of RNA occur. Here, we show how the 2'-hydroxyl controls RNA conformational properties. Quantum mechanical calculations reveal that the orientation of the 2'-hydroxyl significantly alters the intrinsic flexibility of the phosphodiester backbone, favoring the A-form in duplex RNA when it is in the base orientation and facilitating sampling of a wide range of noncanonical, tertiary structures when it is in the O3' orientation. Influencing the orientation of the 2'-hydroxyl are interactions with the environment, as evidenced by crystallographic survey data, indicating the 2'-hydroxyl to sample more of the O3' orientation in noncanonical RNA structures. These results indicate that the 2'-hydroxyl acts as a "switch", both limiting the conformation of RNA to the A-form at the secondary structure level and allowing RNA to sample a wide range of noncanonical tertiary conformations.
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