Literature DB >> 12366156

Effects of macromolecular crowding on protein folding and aggregation studied by density functional theory: statics.

Akira R Kinjo1, Shoji Takada.   

Abstract

Proteins are neither purified nor diluted inside the living cell. Thus it is indispensable to take into account various interactions between the protein of interest and other macromolecules for understanding the properties of proteins in physiological conditions. Here we focus on excluded volume interactions which are omnipresent in dense or crowded solutions of proteins and macromolecules or "crowding agents." A protein solution with macromolecular crowding agents is modeled by means of a density functional theory. Effects of macromolecular crowding on protein aggregation and stability are investigated in particular. Phase diagrams are obtained in various parameter spaces by solving the equation of state. Two generic features are found: the addition of the crowding agent (1) enhances the aggregation of the denatured proteins, and (2) stabilizes the native protein unless the aggregation occurs. The present theory is qualitatively in good agreement with experimental observations and unifies previous theories regarding the crowding effects on protein stability and aggregation.

Year:  2002        PMID: 12366156     DOI: 10.1103/PhysRevE.66.031911

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  13 in total

1.  Atomic-level observation of macromolecular crowding effects: escape of a protein from the GroEL cage.

Authors:  Adrian H Elcock
Journal:  Proc Natl Acad Sci U S A       Date:  2003-02-24       Impact factor: 11.205

2.  Competition between protein folding and aggregation with molecular chaperones in crowded solutions: insight from mesoscopic simulations.

Authors:  Akira R Kinjo; Shoji Takada
Journal:  Biophys J       Date:  2003-12       Impact factor: 4.033

3.  Protein self-association induced by macromolecular crowding: a quantitative analysis by magnetic relaxation dispersion.

Authors:  Karim Snoussi; Bertil Halle
Journal:  Biophys J       Date:  2005-01-21       Impact factor: 4.033

4.  Coarse-grained strategy for modeling protein stability in concentrated solutions.

Authors:  Jason K Cheung; Thomas M Truskett
Journal:  Biophys J       Date:  2005-07-22       Impact factor: 4.033

5.  Effects of macromolecular crowding on biochemical reaction equilibria: a molecular thermodynamic perspective.

Authors:  Zhongqiao Hu; Jianwen Jiang; Raj Rajagopalan
Journal:  Biophys J       Date:  2007-05-18       Impact factor: 4.033

6.  Macromolecular crowding modulates folding mechanism of alpha/beta protein apoflavodoxin.

Authors:  Dirar Homouz; Loren Stagg; Pernilla Wittung-Stafshede; Margaret S Cheung
Journal:  Biophys J       Date:  2009-01       Impact factor: 4.033

7.  How protein thermodynamics and folding mechanisms are altered by the chaperonin cage: molecular simulations.

Authors:  Fumiko Takagi; Nobuyasu Koga; Shoji Takada
Journal:  Proc Natl Acad Sci U S A       Date:  2003-08-28       Impact factor: 11.205

8.  Power-law dependence of the melting temperature of ubiquitin on the volume fraction of macromolecular crowders.

Authors:  Matthias M Waegele; Feng Gai
Journal:  J Chem Phys       Date:  2011-03-07       Impact factor: 3.488

Review 9.  The depletion attraction: an underappreciated force driving cellular organization.

Authors:  Davide Marenduzzo; Kieran Finan; Peter R Cook
Journal:  J Cell Biol       Date:  2006-12-04       Impact factor: 10.539

10.  Mean-field model of immobilized enzymes embedded in a grafted polymer layer.

Authors:  Yevgeny Moskovitz; Simcha Srebnik
Journal:  Biophys J       Date:  2005-04-01       Impact factor: 4.033

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