Abstract:
A modified Peyrard–Bishop–Dauxios model with non-local nature of the inter-site potential was studied in a collisional thermostat with a Maxwell velocity distribution of short-lived virtual particles at a temperature of 310 K. Introduction of non-locality to the inter-site potential was found to reduce significantly the equilibrium constants for the denaturation bubble formation reaction. This property improves the agreement of calculated data with experiments. The effect is especially pronounced for large bubbles. The end effects in the new version of the model are investigated. The significant contribution of entropy and the important role of the processes of transfer and localization of mechanical energy at the end sections of DNA are shown.
Received 18.06.2020, 17.07.2020, Published 26.07.2020
Document Type:
Article
Language: Russian
Citation:
A. S. Shigaev, I. V. Likhachev, V. D. Lakhno, “DNA model with non-local inter-site interaction in collisional thermostat”, Mat. Biolog. Bioinform., 15:2 (2020), 129–137
\Bibitem{ShiLikLak20}
\by A.~S.~Shigaev, I.~V.~Likhachev, V.~D.~Lakhno
\paper DNA model with non-local inter-site interaction in collisional thermostat
\jour Mat. Biolog. Bioinform.
\yr 2020
\vol 15
\issue 2
\pages 129--137
\mathnet{http://mi.mathnet.ru/mbb427}
\crossref{https://doi.org/10.17537/2020.15.129}
Linking options:
https://www.mathnet.ru/eng/mbb427
https://www.mathnet.ru/eng/mbb/v15/i2/p129
This publication is cited in the following 1 articles:
Aleksandr S. Nikitiuk, Yuriy V. Bayandin, Oleg B. Naimark, “Statistical thermodynamics of DNA with open states”, Physica A: Statistical Mechanics and its Applications, 607 (2022), 128156
Citation in format AMSBIB
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