Literature DB >> 8177886

Application of scaled particle theory to model the hydrophobic effect: implications for molecular association and protein stability.

R M Jackson1, M J Sternberg.   

Abstract

The energetics of alkane dissolution and partition between water and organic solvent are described in terms of the energy of cavity formation and solute-solvent interaction using scaled particle theory. Thermodynamic arguments are proposed that allow comparison of experimental measurements of the surface area with values calculated from an all-atom representation of the solute. While the surface tension relating to the accessible surface is shape dependent, it is found that for the molecular surface it is not. This model rationalizes the change in surface tension between the microscopic (20-30 cal/mol/A2) and macroscopic (70-75 cal/mol/A2) regimes without the need to invoke Flory-Huggins theory or to apply other corrections. The difference in the values arises (i) to a small extent as a result of the curvature dependence of surface tension and (ii) to a large extent due to the difference in the molecular surface derived from the experiment and that calculated from an extended all-atom model. The model suggests that the primary driving force for alkane association in water is due to the tendency of water to reduce the solute cavity surface. It is argued that to model the energetics of alkane association, the surface tension should be related to the molecular surface (rather than the accessible surface) with a surface tension near the macroscopic limit for water. This model is compared with results from theoretical simulations of the hydrophobic effect for two well-studied systems. The implications for antibody-antigen interactions and the effect of hydrophobic amino acid deletion on protein stability are discussed. The approach can be used to model the solute cavity formation energy in solution as a first step in the continuum modelling of biomolecular interactions.

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Year:  1994        PMID: 8177886     DOI: 10.1093/protein/7.3.371

Source DB:  PubMed          Journal:  Protein Eng        ISSN: 0269-2139


  9 in total

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3.  Hydrophobic association of alpha-helices, steric dewetting, and enthalpic barriers to protein folding.

Authors:  Justin L MacCallum; Maria Sabaye Moghaddam; Hue Sun Chan; D Peter Tieleman
Journal:  Proc Natl Acad Sci U S A       Date:  2007-04-02       Impact factor: 11.205

4.  Hydrophobic regions on protein surfaces. Derivation of the solvation energy from their area distribution in crystallographic protein structures.

Authors:  F Eisenhaber
Journal:  Protein Sci       Date:  1996-08       Impact factor: 6.725

5.  Hydration and conformational equilibria of simple hydrophobic and amphiphilic solutes.

Authors:  H S Ashbaugh; E W Kaler; M E Paulaitis
Journal:  Biophys J       Date:  1998-08       Impact factor: 4.033

6.  Free energy determinants of binding the rRNA substrate and small ligands to ricin A-chain.

Authors:  M A Olson; L Cuff
Journal:  Biophys J       Date:  1999-01       Impact factor: 4.033

7.  A desolvation barrier to hydrophobic cluster formation may contribute to the rate-limiting step in protein folding.

Authors:  J A Rank; D Baker
Journal:  Protein Sci       Date:  1997-02       Impact factor: 6.725

8.  SIMS: computation of a smooth invariant molecular surface.

Authors:  Y N Vorobjev; J Hermans
Journal:  Biophys J       Date:  1997-08       Impact factor: 4.033

9.  Identification of residues surrounding the active site of type A botulinum neurotoxin important for substrate recognition and catalytic activity.

Authors:  S Ashraf Ahmed; Mark A Olson; Matthew L Ludivico; Janice Gilsdorf; Leonard A Smith
Journal:  Protein J       Date:  2008-04       Impact factor: 2.371

  9 in total

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