Literature DB >> 11222313

Meanfield approach to the thermodynamics of protein-solvent systems with application to p53.

A R Völkel1, J Noolandi.   

Abstract

We present a meanfield theoretical approach for studying protein-solvent interactions. Starting with the partition function of the system, we develop a field theory by introducing densities for the different components of the system. At this point, protein-solvent interactions are introduced following the inhomogeneous Flory-Huggins model for polymers. Finally, we calculate the free energy in a meanfield approximation. We apply this method to study the stability of the tetramerization domain of the tumor suppressor protein p53 when subjected to site-directed mutagenesis. The four chains of this protein are held together by hydrophobic interactions, and some mutations can weaken this bond while preserving the secondary structure of the single protein chains. We find good qualitative agreement between our numerical results and experimental data, thus encouraging the use of this method as a guide in designing experiments.

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Year:  2001        PMID: 11222313      PMCID: PMC1301344          DOI: 10.1016/S0006-3495(01)76125-5

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  29 in total

1.  Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed sequences for different structural classes.

Authors:  J W Ponder; F M Richards
Journal:  J Mol Biol       Date:  1987-02-20       Impact factor: 5.469

2.  LINUS: a hierarchic procedure to predict the fold of a protein.

Authors:  R Srinivasan; G D Rose
Journal:  Proteins       Date:  1995-06

Review 3.  Theoretical studies of protein folding and unfolding.

Authors:  M Karplus; A Sali
Journal:  Curr Opin Struct Biol       Date:  1995-02       Impact factor: 6.809

4.  Solution structure of the tetrameric minimum transforming domain of p53.

Authors:  W Lee; T S Harvey; Y Yin; P Yau; D Litchfield; C H Arrowsmith
Journal:  Nat Struct Biol       Date:  1994-12

5.  Backbone-dependent rotamer library for proteins. Application to side-chain prediction.

Authors:  R L Dunbrack; M Karplus
Journal:  J Mol Biol       Date:  1993-03-20       Impact factor: 5.469

Review 6.  Realistic simulations of native-protein dynamics in solution and beyond.

Authors:  V Daggett; M Levitt
Journal:  Annu Rev Biophys Biomol Struct       Date:  1993

7.  Crystal structure of the tetramerization domain of the p53 tumor suppressor at 1.7 angstroms.

Authors:  P D Jeffrey; S Gorina; N P Pavletich
Journal:  Science       Date:  1995-03-10       Impact factor: 47.728

8.  p53: a glimpse at the puppet behind the shadow play.

Authors:  S Friend
Journal:  Science       Date:  1994-07-15       Impact factor: 47.728

Review 9.  Protein folding dynamics: the diffusion-collision model and experimental data.

Authors:  M Karplus; D L Weaver
Journal:  Protein Sci       Date:  1994-04       Impact factor: 6.725

10.  Refined solution structure of the oligomerization domain of the tumour suppressor p53.

Authors:  G M Clore; J Ernst; R Clubb; J G Omichinski; W M Kennedy; K Sakaguchi; E Appella; A M Gronenborn
Journal:  Nat Struct Biol       Date:  1995-04
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