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Monte Carlo simulations of a polymer chain conformation. The effectiveness of local moves algorithms and estimation of entropy
A linear chain on a simple cubic lattice was simulated by the Metropolis Monte Carlo method using a combination of local and non-local chain modifications. Kink-jump, crankshaft, reptation and end-segment moves were used for local changes of the chain conformation, while for non-local chain rearrang...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Springer Berlin Heidelberg
2013
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3744652/ https://www.ncbi.nlm.nih.gov/pubmed/23765038 http://dx.doi.org/10.1007/s00894-013-1875-z |
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author | Mańka, Agnieszka Nowicki, Waldemar Nowicka, Grażyna |
author_facet | Mańka, Agnieszka Nowicki, Waldemar Nowicka, Grażyna |
author_sort | Mańka, Agnieszka |
collection | PubMed |
description | A linear chain on a simple cubic lattice was simulated by the Metropolis Monte Carlo method using a combination of local and non-local chain modifications. Kink-jump, crankshaft, reptation and end-segment moves were used for local changes of the chain conformation, while for non-local chain rearrangements the "cut-and-paste" algorithm was employed. The statistics of local micromodifications was examined. An approximate method for estimating the conformational entropy of a polymer chain, based on the efficiency of the kink-jump motion respecting chain continuity and excluded volume constraints, was proposed. The method was tested by calculating the conformational entropy of the undisturbed chain, the chain under tension and in different solvent conditions (athermal, theta and poor) and also of the chain confined in a slit. The results of these test calculations are qualitatively consistent with expectations. Moreover, the obtained values of the conformational entropy of self avoiding chain with ends fixed over different separations, agree very well with the available literature data. [Figure: see text] |
format | Online Article Text |
id | pubmed-3744652 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2013 |
publisher | Springer Berlin Heidelberg |
record_format | MEDLINE/PubMed |
spelling | pubmed-37446522013-08-16 Monte Carlo simulations of a polymer chain conformation. The effectiveness of local moves algorithms and estimation of entropy Mańka, Agnieszka Nowicki, Waldemar Nowicka, Grażyna J Mol Model Original Paper A linear chain on a simple cubic lattice was simulated by the Metropolis Monte Carlo method using a combination of local and non-local chain modifications. Kink-jump, crankshaft, reptation and end-segment moves were used for local changes of the chain conformation, while for non-local chain rearrangements the "cut-and-paste" algorithm was employed. The statistics of local micromodifications was examined. An approximate method for estimating the conformational entropy of a polymer chain, based on the efficiency of the kink-jump motion respecting chain continuity and excluded volume constraints, was proposed. The method was tested by calculating the conformational entropy of the undisturbed chain, the chain under tension and in different solvent conditions (athermal, theta and poor) and also of the chain confined in a slit. The results of these test calculations are qualitatively consistent with expectations. Moreover, the obtained values of the conformational entropy of self avoiding chain with ends fixed over different separations, agree very well with the available literature data. [Figure: see text] Springer Berlin Heidelberg 2013-06-14 2013 /pmc/articles/PMC3744652/ /pubmed/23765038 http://dx.doi.org/10.1007/s00894-013-1875-z Text en © The Author(s) 2013 https://creativecommons.org/licenses/by-nc/2.0/ Open Access This article is distributed under the terms of the Creative Commons Attribution License which permits any use, distribution, and reproduction in any medium, provided the original author(s) and the source are credited. |
spellingShingle | Original Paper Mańka, Agnieszka Nowicki, Waldemar Nowicka, Grażyna Monte Carlo simulations of a polymer chain conformation. The effectiveness of local moves algorithms and estimation of entropy |
title | Monte Carlo simulations of a polymer chain conformation. The effectiveness of local moves algorithms and estimation of entropy |
title_full | Monte Carlo simulations of a polymer chain conformation. The effectiveness of local moves algorithms and estimation of entropy |
title_fullStr | Monte Carlo simulations of a polymer chain conformation. The effectiveness of local moves algorithms and estimation of entropy |
title_full_unstemmed | Monte Carlo simulations of a polymer chain conformation. The effectiveness of local moves algorithms and estimation of entropy |
title_short | Monte Carlo simulations of a polymer chain conformation. The effectiveness of local moves algorithms and estimation of entropy |
title_sort | monte carlo simulations of a polymer chain conformation. the effectiveness of local moves algorithms and estimation of entropy |
topic | Original Paper |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3744652/ https://www.ncbi.nlm.nih.gov/pubmed/23765038 http://dx.doi.org/10.1007/s00894-013-1875-z |
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