ArticleBiochemistry2010
Dependence of RNA tertiary structural stability on Mg2+ concentration: interpretation of the Hill equation and coefficient.
Article in Biochemistry, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed.
- Aptamer targeting proprotein convertase subtilisin/kexin type 9:Research in pharmaceutical sciences · 2026Article
- Human lncRNAProceedings of the National Academy of Sciences of the United States of America · 2026Article
- The RNA-Binding Domain of hnRNP U Extends beyond the RGG/RG Motifs.Biochemistry · 2024Article
- Goldilocks and RNA: where Mg2+ concentration is just right.Nucleic acids research · 2023Article
- Disentangling contact and ensemble epistasis in a riboswitch.Biophysical journal · 2023Article
- Characterization of Structure and Dynamics of the Guanidine-II Riboswitch from Escherichia coli by NMR Spectroscopy and Small-Angle X-ray Scattering (SAXS).Chembiochem : a European journal of chemical biology · 2022Article
- RsmG forms stable complexes with premature small subunit rRNA during bacterial ribosome biogenesis.RSC advances · 2020Article
- Pseudouridine Synthase RsuA Captures an Assembly Intermediate that Is Stabilized by Ribosomal Protein S17.Biomolecules · 2020Article
- Divalent ions tune the kinetics of a bacterial GTPase center rRNA folding transition from secondary to tertiary structure.RNA (New York, N.Y.) · 2018Article
- Effects of Preferential Counterion Interactions on the Specificity of RNA Folding.The journal of physical chemistry letters · 2018Article
- Single-Molecule Fluorescence Reveals Commonalities and Distinctions among Natural and in Vitro-Selected RNA Tertiary Motifs in a Multistep Folding Pathway.Journal of the American Chemical Society · 2017Article
- Divalent ion competition reveals reorganization of an RNA ion atmosphere upon folding.Nucleic acids research · 2017Article
- The 2D Structure of theJournal of nucleic acids · 2017Article
- Nucleobases Undergo Dynamic Rearrangements during RNA Tertiary Folding.Journal of molecular biology · 2016Article
- Kinetic and thermodynamic framework for P4-P6 RNA reveals tertiary motif modularity and modulation of the folding preferred pathway.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Development of antithrombotic nanoconjugate blocking integrin α2β1-collagen interactions.Scientific reports · 2016Article
- Formation of Tertiary Interactions during rRNA GTPase Center Folding.Journal of molecular biology · 2015Article
- Synthesis and applications of RNAs with position-selective labelling and mosaic composition.Nature · 2015Article
- Article
- Molecular crowding overcomes the destabilizing effects of mutations in a bacterial ribozyme.Nucleic acids research · 2015Article
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2 authors.
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Abstract
The Mg(2+)-induced folding of RNA tertiary structures is readily observed via titrations of RNA with MgCl(2). Such titrations are commonly analyzed using a site binding formalism that includes a parameter, the Hill coefficient n, which is sometimes deemed the number of Mg(2+) ions bound by the native RNA at specific sites. However, the long-range nature of electrostatic interactions allows ions some distance from the RNA to stabilize an RNA structure. A complete description of all interactions taking place between Mg(2+) and an RNA uses a preferential interaction coefficient, Gamma(2+), which represents the "excess" Mg(2+) neutralizing the RNA charge. The difference between Gamma(2+) for the native and unfolded RNA forms (DeltaGamma(2+)) is the number of Mg(2+) ions "taken up" by an RNA upon folding. Here we determine the conditions under which the Hill coefficient n can be equated to the ion uptake DeltaGamma(2+) and find that two approximations are necessary: (i) the Mg(2+) activity coefficient is independent of concentration during a titration, and (ii) the dependence of DeltaGamma(2+) on Mg(2+) concentration is weak. Titration experiments with a Mg(2+)-binding dye and an adenine-binding riboswitch were designed to test these approximations. Inclusion of a 30-fold excess of KCl over MgCl(2) was sufficient to maintain a constant Mg(2+) activity coefficient. We also observed that Mg(2+) uptake by the RNA varied from near zero to approximately 2.6 as the Mg(2+) concentration increases over an approximately 100-fold range. It is possible to determine DeltaGamma(2+) from Mg(2+)-RNA titrations, but the values are only applicable to a limited range of solution conditions.
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