Literature DB >> 16429398

Heat capacity changes associated with nucleic acid folding.

Peter J Mikulecky1, Andrew L Feig.   

Abstract

Whereas heat capacity changes (DeltaCPs) associated with folding transitions are commonplace in the literature of protein folding, they have long been considered a minor energetic contributor in nucleic acid folding. Recent advances in the understanding of nucleic acid folding and improved technology for measuring the energetics of folding transitions have allowed a greater experimental window for measuring these effects. We present in this review a survey of current literature that confronts the issue of DeltaCPs associated with nucleic acid folding transitions. This work helps to gather the molecular insights that can be gleaned from analysis of DeltaCPs and points toward the challenges that will need to be overcome if the energetic contribution of DeltaCP terms are to be put to use in improving free energy calculations for nucleic acid structure prediction. Copyright (c) 2006 Wiley Periodicals, Inc.

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Year:  2006        PMID: 16429398      PMCID: PMC2465468          DOI: 10.1002/bip.20457

Source DB:  PubMed          Journal:  Biopolymers        ISSN: 0006-3525            Impact factor:   2.505


  106 in total

1.  Prediction of hybridization and melting for double-stranded nucleic acids.

Authors:  Roumen A Dimitrov; Michael Zuker
Journal:  Biophys J       Date:  2004-07       Impact factor: 4.033

2.  Thermodynamics of DNA branching.

Authors:  M Lu; Q Guo; L A Marky; N C Seeman; N R Kallenbach
Journal:  J Mol Biol       Date:  1992-02-05       Impact factor: 5.469

3.  The contribution of DNA single-stranded order to the thermodynamics of duplex formation.

Authors:  G Vesnaver; K J Breslauer
Journal:  Proc Natl Acad Sci U S A       Date:  1991-05-01       Impact factor: 11.205

4.  A spectroscopic and calorimetric study of the melting behaviors of a "bent" and a "normal" DNA duplex: [d(GA4T4C)]2 versus [d(GT4A4C)]2.

Authors:  Y W Park; K J Breslauer
Journal:  Proc Natl Acad Sci U S A       Date:  1991-02-15       Impact factor: 11.205

5.  Native proteins are surface-molten solids: application of the Lindemann criterion for the solid versus liquid state.

Authors:  Y Zhou; D Vitkup; M Karplus
Journal:  J Mol Biol       Date:  1999-01-29       Impact factor: 5.469

Review 6.  Win some, lose some: enthalpy-entropy compensation in weak intermolecular interactions.

Authors:  J D Dunitz
Journal:  Chem Biol       Date:  1995-11

7.  Possible origin of differences between van't Hoff and calorimetric enthalpy estimates.

Authors:  J B Chaires
Journal:  Biophys Chem       Date:  1997-02-28       Impact factor: 2.352

8.  Calorimetric studies on melting of tRNA Phe (yeast).

Authors:  H J Hinz; V V Filimonov; P L Privalov
Journal:  Eur J Biochem       Date:  1977-01-03

9.  Scanning microcalorimetry in studying temperature-induced changes in proteins.

Authors:  P L Privalov; S A Potekhin
Journal:  Methods Enzymol       Date:  1986       Impact factor: 1.600

10.  Calorimetric determination of the heat capacity changes associated with the conformational transitions of polyriboadenylic acid and polyribouridylic acid.

Authors:  J Suurkuusk; J Alvarez; E Freire; R Biltonen
Journal:  Biopolymers       Date:  1977-12       Impact factor: 2.505

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  38 in total

1.  Thermodynamic and kinetic analysis of an RNA kissing interaction and its resolution into an extended duplex.

Authors:  Nilshad Salim; Rajan Lamichhane; Rui Zhao; Tuhina Banerjee; Jane Philip; David Rueda; Andrew L Feig
Journal:  Biophys J       Date:  2012-03-06       Impact factor: 4.033

Review 2.  Differential scanning calorimetry techniques: applications in biology and nanoscience.

Authors:  Pooria Gill; Tahereh Tohidi Moghadam; Bijan Ranjbar
Journal:  J Biomol Tech       Date:  2010-12

3.  Heat capacity changes associated with DNA duplex formation: salt- and sequence-dependent effects.

Authors:  Peter J Mikulecky; Andrew L Feig
Journal:  Biochemistry       Date:  2006-01-17       Impact factor: 3.162

4.  Temperature effects on DNA chip experiments from surface plasmon resonance imaging: isotherms and melting curves.

Authors:  J B Fiche; A Buhot; R Calemczuk; T Livache
Journal:  Biophys J       Date:  2006-11-03       Impact factor: 4.033

Review 5.  Applications of isothermal titration calorimetry in RNA biochemistry and biophysics.

Authors:  Andrew L Feig
Journal:  Biopolymers       Date:  2007 Dec 5-15       Impact factor: 2.505

6.  Thermodynamics and kinetics of RNA tertiary structure formation in the junctionless hairpin ribozyme.

Authors:  Neil A White; Charles G Hoogstraten
Journal:  Biophys Chem       Date:  2017-07-08       Impact factor: 2.352

Review 7.  Biomolecular electrostatics and solvation: a computational perspective.

Authors:  Pengyu Ren; Jaehun Chun; Dennis G Thomas; Michael J Schnieders; Marcelo Marucho; Jiajing Zhang; Nathan A Baker
Journal:  Q Rev Biophys       Date:  2012-11       Impact factor: 5.318

8.  Enthalpy-driven RNA folding: single-molecule thermodynamics of tetraloop-receptor tertiary interaction.

Authors:  Julie L Fiore; Benedikt Kraemer; Felix Koberling; Rainer Edmann; David J Nesbitt
Journal:  Biochemistry       Date:  2009-03-24       Impact factor: 3.162

9.  Fluorescence competition assay measurements of free energy changes for RNA pseudoknots.

Authors:  Biao Liu; Neelaabh Shankar; Douglas H Turner
Journal:  Biochemistry       Date:  2010-01-26       Impact factor: 3.162

10.  Energetic signatures of single base bulges: thermodynamic consequences and biological implications.

Authors:  Conceição A S A Minetti; David P Remeta; Rian Dickstein; Kenneth J Breslauer
Journal:  Nucleic Acids Res       Date:  2009-11-27       Impact factor: 16.971

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