Literature DB >> 8913295

On the decomposition of free energies.

G P Brady1, A Szabo, K A Sharp.   

Abstract

The decomposition of free energies and entropies into components has recently been discussed within the framework of the free energy perturbation (FEP) and thermodynamic integration (TI) methods. In FEP, the cumulant expansion of the excess free energy contains coupling terms in second and higher orders. It is shown here that this expansion can be expressed in terms of temperature derivatives of the mean energy, suggesting a natural decomposition of the free energy into components corresponding to each term in the Hamiltonian. This result is derived in such a way that it establishes the equivalence to a particular form of component analysis based on TI in which all terms in the interaction energy are turned on simultaneously using 1/kT as the coupling parameter.

Mesh:

Year:  1996        PMID: 8913295     DOI: 10.1006/jmbi.1996.0563

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  4 in total

1.  Dependence of protein stability on the structure of the denatured state: free energy calculations of I56V mutation in human lysozyme.

Authors:  Y Sugita; A Kitao
Journal:  Biophys J       Date:  1998-11       Impact factor: 4.033

2.  Protein-protein recognition: an experimental and computational study of the R89K mutation in Raf and its effect on Ras binding.

Authors:  J Zeng; M Fridman; H Maruta; H R Treutlein; T Simonson
Journal:  Protein Sci       Date:  1999-01       Impact factor: 6.725

3.  15N backbone dynamics of the S-peptide from ribonuclease A in its free and S-protein bound forms: toward a site-specific analysis of entropy changes upon folding.

Authors:  A T Alexandrescu; K Rathgeb-Szabo; K Rumpel; W Jahnke; T Schulthess; R A Kammerer
Journal:  Protein Sci       Date:  1998-02       Impact factor: 6.725

4.  Predicting the effects of basepair mutations in DNA-protein complexes by thermodynamic integration.

Authors:  Frank R Beierlein; G Geoff Kneale; Timothy Clark
Journal:  Biophys J       Date:  2011-09-07       Impact factor: 4.033

  4 in total

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