ArticleNucleic acids research2012
Characterization of the kinetic and thermodynamic landscape of RNA folding using a novel application of isothermal titration calorimetry.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 49 citations in OpenAlex.
- Parameter estimation on multivalent ITC data sets.Scientific reports · 2022Article
- Isothermal titration calorimetry in the single-injection mode with imperfect mixing.European biophysics journal : EBJ · 2022Article
- Kinetic Microscale Thermophoresis for Simultaneous Measurement of Binding Affinity and Kinetics.Angewandte Chemie (International ed. in English) · 2021Article
- In vitro selected GUAA tetraloop-binding receptors with structural plasticity and evolvability towards natural RNA structural modules.Nucleic acids research · 2021Article
- Structural and biochemical analysis of the metallo-β-lactamase L1 from emerging pathogen Stenotrophomonas maltophilia revealed the subtle but distinct di-metal scaffold for catalytic activity.Protein science : a publication of the Protein Society · 2020Article
- Enzyme Kinetics by Isothermal Titration Calorimetry: Allostery, Inhibition, and Dynamics.Frontiers in molecular biosciences · 2020Review
- Rapid measurement of inhibitor binding kinetics by isothermal titration calorimetry.Nature communications · 2018Article
- Article
- 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
- Unique Length-Dependent Biophysical Properties of Repetitive DNA.The journal of physical chemistry. B · 2016Article
- Measuring the Kinetics of Molecular Association by Isothermal Titration Calorimetry.Methods in enzymology · 2016Article
- Quantitative and predictive model of kinetic regulation by E. coli TPP riboswitches.RNA biology · 2016Article
- Global analysis of riboswitches by small-angle X-ray scattering and calorimetry.Biochimica et biophysica acta · 2014Review
- Exploring the electrostatic energy landscape for tetraloop-receptor docking.Physical chemistry chemical physics : PCCP · 2014Article
- Ion-mediated RNA structural collapse: effect of spatial confinement.Biophysical journal · 2012Article
- Thermodynamic origins of monovalent facilitated RNA folding.Biochemistry · 2012Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
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Abstract
A novel isothermal titration calorimetry (ITC) method was applied to investigate RNA helical packing driven by the GAAA tetraloop-receptor interaction in magnesium and potassium solutions. Both the kinetics and thermodynamics were obtained in individual ITC experiments, and analysis of the kinetic data over a range of temperatures provided Arrhenius activation energies (ΔH(‡)) and Eyring transition state entropies (ΔS(‡)). The resulting rich dataset reveals strongly contrasting kinetic and thermodynamic profiles for this RNA folding system when stabilized by potassium versus magnesium. In potassium, association is highly exothermic (ΔH(25°C) = -41.6 ± 1.2 kcal/mol in 150 mM KCl) and the transition state is enthalpically barrierless (ΔH(‡) = -0.6 ± 0.5). These parameters are significantly positively shifted in magnesium (ΔH(25°C) = -20.5 ± 2.1 kcal/mol, ΔH(‡) = 7.3 ± 2.2 kcal/mol in 0.5 mM MgCl(2)). Mixed salt solutions approximating physiological conditions exhibit an intermediate thermodynamic character. The cation-dependent thermodynamic landscape may reflect either a salt-dependent unbound receptor conformation, or alternatively and more generally, it may reflect a small per-cation enthalpic penalty associated with folding-coupled magnesium uptake.
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Registered trials
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