Literature DB >> 25353524

Unified description of solvent effects in the helix-coil transition.

Artem Badasyan1, Shushanik A Tonoyan2, Achille Giacometti3, Rudolf Podgornik4, V Adrian Parsegian5, Yevgeni Sh Mamasakhlisov2, Vladimir F Morozov2.   

Abstract

We analyze the problem of the helix-coil transition in explicit solvents analytically by using spin-based models incorporating two different mechanisms of solvent action: explicit solvent action through the formation of solvent-polymer hydrogen bonds that can compete with the intrinsic intra-polymer hydrogen bonded configurations (competing interactions) and implicit solvent action, where the solvent-polymer interactions tune biopolymer configurations by changing the activity of the solvent (non-competing interactions). The overall spin Hamiltonian is comprised of three terms: the background in vacuo Hamiltonian of the "Generalized Model of Polypeptide Chain" type and two additive terms that account for the two above mechanisms of solvent action. We show that on this level the solvent degrees of freedom can be explicitly and exactly traced over, the ensuing effective partition function combining all the solvent effects in a unified framework. In this way we are able to address helix-coil transitions for polypeptides, proteins, and DNA, with different buffers and different external constraints. Our spin-based effective Hamiltonian is applicable for treatment of such diverse phenomena as cold denaturation, effects of osmotic pressure on the cold and warm denaturation, complicated temperature dependence of the hydrophobic effect as well as providing a conceptual base for understanding the behavior of intrinsically disordered proteins and their analogues.

Entities:  

Mesh:

Substances:

Year:  2014        PMID: 25353524     DOI: 10.1103/PhysRevE.89.022723

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


  3 in total

1.  Helix-coil transition in terms of Potts-like spins.

Authors:  Artem Badasyan; Achille Giacometti; Rudolf Podgornik; Yevgeni Mamasakhlisov; Vladimir Morozov
Journal:  Eur Phys J E Soft Matter       Date:  2013-05-14       Impact factor: 1.890

2.  Quarterly intrinsic disorder digest (January-February-March, 2014).

Authors:  Shelly DeForte; Krishna D Reddy; Vladimir N Uversky
Journal:  Intrinsically Disord Proteins       Date:  2016-02-12

3.  Folding propensity of intrinsically disordered proteins by osmotic stress.

Authors:  Amanda L Mansouri; Laura N Grese; Erica L Rowe; James C Pino; S Chakra Chennubhotla; Arvind Ramanathan; Hugh M O'Neill; Valerie Berthelier; Christopher B Stanley
Journal:  Mol Biosyst       Date:  2016-11-15
  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.