arXiv 0801.37502008-01cond-mat.stat-mechcond-mat.soft

Bethe approximation for the hydrogen-bonding self-avoiding walk in a solvent

D. P. Foster, M. Aniambossou

备注：: 14 pages, 8 figures; final version accepted Phys Rev E
DOI：: 10.1103/PhysRevE.77.061121

英文摘要：

A square-lattice model for the formation of secondary structures in proteins, the hydrogen-bonding model, extended to include the effects of solvent quality, is examined in the framework of the Bethe approximation.

机构、总结、中文摘要均由AI分析而来，可能存在错误，请以论文正文为准。

阅读原文

阅读 PDF ↗

arXiv 页面 ↗HTML 原文 ↗

本文内容

英文摘要相关论文

机构、总结、中文摘要均由AI分析而来，可能存在错误，请以论文正文为准。

继续探索

相关论文

The statistical mechanics of the two-dimensional hydrogen-bonding self-avoiding walk including solvent effects

A two-dimensional square-lattice model for the formation of secondary structures in proteins, the hydrogen-bonding model, is extended to include the effects of solvent quality. This is achieved by allowing configuration-dependent nearest-neighbour interactions. The phase diagram is presented, and found to have a much richer variety of phases than either the pure hydrogen-bonding self-avoiding walk model or the standard $Θ$-point model.

2007-10-28cond-mat.softcond-mat.stat-mech

Bethe approximation for a DNA-like self-avoiding walk model with variable solvent quality

The phase diagram and critical behaviour of a simple toy model for DNA zipping/unzipping is examined in the framework of the Bethe approximation. The effects of solvent quality are included, and found to lead to a variety of different thermodynamic behaviours.

2009-03-04cond-mat.stat-mech

Competition for hydrogen bond formation in the helix-coil transition and protein folding

The problem of the helix-coil transition of biopolymers in explicit solvents, like water, with the ability for hydrogen bonding with solvent is addressed analytically using a suitably modified version of the Generalized Model of Polypeptide Chains. Besides the regular helix-coil transition, an additional coil-helix or reentrant transition is also found at lower temperatures. The reentrant transition arises due to competition between polymer-polymer and polymer-water hydrogen bonds. The balance between the two types of hydrogen bonding can be shifted to either direction through changes not only…

2011-03-16cond-mat.softcond-mat.stat-mechq-bio.BM

Derivation of a Markov state model of the dynamics of a protein-like chain immersed in an implicit solvent

A Markov state model of the dynamics of a protein-like chain immersed in an implicit hard sphere solvent is derived from first principles for a system of monomers that interact via discontinuous potentials designed to account for local structure and bonding in a coarse-grained sense. The model is based on the assumption that the implicit solvent interacts on a fast time scale with the monomers of the chain compared to the time scale for structural rearrangements of the chain and provides sufficient friction so that the motion of monomers is governed by the Smoluchowski equation. A microscopic …

2014-08-26cond-mat.stat-mechphysics.bio-ph