Literature DB >> 19257074

Pressure effects on structures formed by entropically driven self-assembly: illustration for denaturation of proteins.

Takashi Yoshidome1, Yuichi Harano, Masahiro Kinoshita.   

Abstract

We propose a general framework of pressure effects on the structures formed by the self-assembly of solute molecules immersed in solvent. The integral equation theory combined with the morphometric approach is employed for a hard-body model system. Our picture is that protein folding and ordered association of proteins are driven by the solvent entropy: At low pressures, the structures almost minimizing the excluded volume (EV) generated for solvent particles are stabilized. Such structures appear to be even more stabilized at high pressures. However, it is experimentally known that the native structure of a protein is unfolded, and ordered aggregates such as amyloid fibrils and actin filaments are dissociated by applying high pressures. This initially puzzling result can also be elucidated in terms of the solvent entropy. A clue to the basic mechanism is in the phenomenon that, when a large hard-sphere solute is immersed in small hard spheres forming the solvent, the small hard spheres are enriched near the solute and this enrichment becomes greater as the pressure increases. We argue that "attraction" is entropically provided between the solute surface and solvent particles, and the attraction becomes higher with rising pressure. Due to this effect, at high pressures, the structures possessing the largest possible solvent-accessible surface area together with sufficiently small EV become more stable in terms of the solvent entropy. To illustrate this concept, we perform an analysis of pressure denaturation of three different proteins. It is shown that only the structures that have the characteristics described above exhibit interesting behavior. They first become more destabilized relative to the native structure as the pressure increases, but beyond a threshold pressure the relative instability begins to decrease and they eventually become more stable than the native structure.

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Year:  2009        PMID: 19257074     DOI: 10.1103/PhysRevE.79.011912

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


  5 in total

1.  Single-molecule analysis of the rotation of F₁-ATPase under high hydrostatic pressure.

Authors:  Daichi Okuno; Masayoshi Nishiyama; Hiroyuki Noji
Journal:  Biophys J       Date:  2013-10-01       Impact factor: 4.033

Review 2.  A new theoretical approach to biological self-assembly.

Authors:  Masahiro Kinoshita
Journal:  Biophys Rev       Date:  2013-02-01

Review 3.  Importance of water entropy in rotation mechanism of F1-ATPase.

Authors:  Takashi Yoshidome
Journal:  Biophysics (Nagoya-shi)       Date:  2011-11-18

4.  Enhanced enzymatic activity exerted by a packed assembly of a single type of enzyme.

Authors:  Huyen Dinh; Eiji Nakata; Kaori Mutsuda-Zapater; Masayuki Saimura; Masahiro Kinoshita; Takashi Morii
Journal:  Chem Sci       Date:  2020-07-27       Impact factor: 9.825

Review 5.  Importance of translational entropy of water in biological self-assembly processes like protein folding.

Authors:  Masahiro Kinoshita
Journal:  Int J Mol Sci       Date:  2009-03-11       Impact factor: 6.208

  5 in total

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