ArticleJournal of molecular biology2008
Thermodynamics and folding pathway of tetraloop receptor-mediated RNA helical packing.
Article in Journal of molecular biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 30 citations in OpenAlex.
- In vitro selected GUAA tetraloop-binding receptors with structural plasticity and evolvability towards natural RNA structural modules.Nucleic acids research · 2021Article
- Thermodynamics and kinetics of RNA tertiary structure formation in the junctionless hairpin ribozyme.Biophysical chemistry · 2017Article
- Entropic stabilization of folded RNA in crowded solutions measured by SAXS.Nucleic acids research · 2016Article
- Measuring the Kinetics of Molecular Association by Isothermal Titration Calorimetry.Methods in enzymology · 2016Article
- Dynamics of riboswitches: Molecular simulations.Biochimica et biophysica acta · 2014Review
- Exploring the electrostatic energy landscape for tetraloop-receptor docking.Physical chemistry chemical physics : PCCP · 2014Article
- Intermolecular domain docking in the hairpin ribozyme: metal dependence, binding kinetics and catalysis.RNA biology · 2013Article
- Thermodynamic origins of monovalent facilitated RNA folding.Biochemistry · 2012Article
- Thermodynamic and kinetic analysis of an RNA kissing interaction and its resolution into an extended duplex.Biophysical journal · 2012Article
- Characterization of the kinetic and thermodynamic landscape of RNA folding using a novel application of isothermal titration calorimetry.Nucleic acids research · 2012Article
- Entropic origin of Mg2+-facilitated RNA folding.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Conformation effects of base modification on the anticodon stem-loop of Bacillus subtilis tRNA(Tyr).Journal of molecular biology · 2011Article
- Fluorescence competition assay measurements of free energy changes for RNA pseudoknots.Biochemistry · 2010Article
- Compact intermediates in RNA folding.Annual review of biophysics · 2010Review
- Advances in RNA structure prediction from sequence: new tools for generating hypotheses about viral RNA structure-function relationships.Journal of virology · 2009Review
- Enthalpy-driven RNA folding: single-molecule thermodynamics of tetraloop-receptor tertiary interaction.Biochemistry · 2009Article
- Studying RNA-RNA and RNA-protein interactions by isothermal titration calorimetry.Methods in enzymology · 2009Article
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
Little is known about the thermodynamic forces that drive the folding pathways of higher-order RNA structure. In this study, we employ calorimetric [isothermal titration calorimetry (ITC) and differential scanning calorimetry (DSC)] and spectroscopic (NMR and UV) methods to characterize the thermodynamics of the GAAA tetraloop-receptor interaction, utilizing a previously described bivalent construct. ITC studies indicate that the bivalent interaction is enthalpy driven and highly stable, with a binding constant (K(obs)) of 5.5x10(6) M(-1) and enthalpy (DeltaH(obs)(o)) of -33.8 kcal/mol at 45 degrees C in 20 mM KCl and 2 mM MgCl(2). Thus, we derive the DeltaH(obs)(o) for a single tetraloop-receptor interaction to be -16.9 kcal/mol at these conditions. UV absorbance data indicate that an increase in base stacking quality contributes to the enthalpy of complex formation. These highly favorable thermodynamics are consistent with the known critical role for the tetraloop-receptor motif in the folding of large RNAs. Additionally, a significant heat capacity change (DeltaC(p,obs)(o)) of -0.24 kcal mol(-1) K(-1) was determined by ITC. DSC and UV-monitored thermal denaturation experiments indicate that the bivalent tetraloop-receptor construct follows a minimally five-state unfolding pathway and suggest the observed DeltaC(p,obs)(o) for the interaction results from a temperature-dependent unbound receptor RNA structure.
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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.