Literature DB >> 21744905

Fluctuation theory of molecular association and conformational equilibria.

Yuanfang Jiao1, Paul E Smith.   

Abstract

General expressions relating the effects of pressure, temperature, and composition on solute association and conformational equilibria using the fluctuation theory of solutions are provided. The expressions are exact and can be used to interpret experimental or computer simulation data for any multicomponent mixture involving molecules of any size and character at any composition. The relationships involve particle-particle, particle-energy, and energy-energy correlations within local regions in the vicinity of each species involved in the equilibrium. In particular, it is demonstrated that the results can be used to study peptide and protein association or aggregation, protein denaturation, and protein-ligand binding. Exactly how the relevant fluctuating properties may be obtained from experimental or computer simulation data are also outlined. It is shown that the enthalpy, heat capacity, and compressibility differences associated with the equilibrium process can, in principle, be obtained from a single simulation. Fluctuation based expressions for partial molar heat capacities, thermal expansions, and isothermal compressibilities are also provided.

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Year:  2011        PMID: 21744905      PMCID: PMC3158034          DOI: 10.1063/1.3601342

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  38 in total

1.  Estimating hydration changes upon biomolecular reactions from osmotic stress, high pressure, and preferential hydration experiments.

Authors:  Seishi Shimizu
Journal:  Proc Natl Acad Sci U S A       Date:  2004-01-19       Impact factor: 11.205

2.  Thermodynamic fluctuations in protein molecules.

Authors:  A Cooper
Journal:  Proc Natl Acad Sci U S A       Date:  1976-08       Impact factor: 11.205

Review 3.  Heat capacity in proteins.

Authors:  Ninad V Prabhu; Kim A Sharp
Journal:  Annu Rev Phys Chem       Date:  2005       Impact factor: 12.703

4.  Kirkwood-Buff theory of molecular and protein association, aggregation, and cellular crowding.

Authors:  Moon Bae Gee; Paul E Smith
Journal:  J Chem Phys       Date:  2009-10-28       Impact factor: 3.488

5.  Local fluctuations in solution mixtures.

Authors:  Elizabeth A Ploetz; Paul E Smith
Journal:  J Chem Phys       Date:  2011-07-28       Impact factor: 3.488

6.  Lipid packing drives the segregation of transmembrane helices into disordered lipid domains in model membranes.

Authors:  Lars V Schäfer; Djurre H de Jong; Andrea Holt; Andrzej J Rzepiela; Alex H de Vries; Bert Poolman; J Antoinette Killian; Siewert J Marrink
Journal:  Proc Natl Acad Sci U S A       Date:  2011-01-04       Impact factor: 11.205

7.  Compressibility-structure relationship of globular proteins.

Authors:  K Gekko; Y Hasegawa
Journal:  Biochemistry       Date:  1986-10-21       Impact factor: 3.162

8.  Solvent isotope effect and protein stability.

Authors:  G I Makhatadze; G M Clore; A M Gronenborn
Journal:  Nat Struct Biol       Date:  1995-10

9.  Dynamic correlation between pressure-induced protein structural transition and water penetration.

Authors:  Takashi Imai; Yuji Sugita
Journal:  J Phys Chem B       Date:  2010-02-18       Impact factor: 2.991

10.  How Can Hydrophobic Association Be Enthalpy Driven?

Authors:  Piotr Setny; Riccardo Baron; J Andrew McCammon
Journal:  J Chem Theory Comput       Date:  2010-08-24       Impact factor: 6.006

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  10 in total

1.  Local Fluctuations in Solution: Theory and Applications.

Authors:  Elizabeth A Ploetz; Paul E Smith
Journal:  Adv Chem Phys       Date:  2013       Impact factor: 1.000

2.  Experimental triplet and quadruplet fluctuation densities and spatial distribution function integrals for liquid mixtures.

Authors:  Elizabeth A Ploetz; Paul E Smith
Journal:  J Chem Phys       Date:  2015-03-07       Impact factor: 3.488

3.  Experimental triplet and quadruplet fluctuation densities and spatial distribution function integrals for pure liquids.

Authors:  Elizabeth A Ploetz; Sadish Karunaweera; Paul E Smith
Journal:  J Chem Phys       Date:  2015-01-28       Impact factor: 3.488

4.  Quantitative characterization of local protein solvation to predict solvent effects on protein structure.

Authors:  Vincent Vagenende; Bernhardt L Trout
Journal:  Biophys J       Date:  2012-09-19       Impact factor: 4.033

5.  Local fluctuations in solution mixtures.

Authors:  Elizabeth A Ploetz; Paul E Smith
Journal:  J Chem Phys       Date:  2011-07-28       Impact factor: 3.488

6.  Theory and Simulation of Multicomponent Osmotic Systems.

Authors:  Sadish Karunaweera; Moon Bae Gee; Samantha Weerasinghe; Paul E Smith
Journal:  J Chem Theory Comput       Date:  2012-10-09       Impact factor: 6.006

7.  Simulated pressure denaturation thermodynamics of ubiquitin.

Authors:  Elizabeth A Ploetz; Paul E Smith
Journal:  Biophys Chem       Date:  2017-04-25       Impact factor: 2.352

8.  Volume exclusion and H-bonding dominate the thermodynamics and solvation of trimethylamine-N-oxide in aqueous urea.

Authors:  Jörg Rösgen; Ruby Jackson-Atogi
Journal:  J Am Chem Soc       Date:  2012-02-10       Impact factor: 15.419

9.  Infinitely dilute partial molar properties of proteins from computer simulation.

Authors:  Elizabeth A Ploetz; Paul E Smith
Journal:  J Phys Chem B       Date:  2014-11-03       Impact factor: 2.991

10.  Quantifying the molecular origins of opposite solvent effects on protein-protein interactions.

Authors:  Vincent Vagenende; Alvin X Han; Han B Pek; Bernard L W Loo
Journal:  PLoS Comput Biol       Date:  2013-05-16       Impact factor: 4.475

  10 in total

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