Solitons in Yakushevich-like models of DNA dynamics with improved intrapair potential

DOI

10.2991/jnmp.2007.14.1.6How to use a DOI?

Abstract

The Yakushevich model provides a very simple pictures of DNA torsion dynamics, yet yields remarkably correct predictions on certain physical characteristics of the dynamics. In the standard Yakushevich model, the interaction between bases of a pair is modelled by a harmonic potential, which becomes anharmonic when described in terms of the rotation angles; here we substitute to this different types of improved potentials, providing a more physical description of the H-bond mediated interactions between the bases. We focus in particular on soliton solutions; the Yakushevich model predicts the correct size of the nonlinear excitations supposed to model the "transcription bubbles", and this is essentially unchanged with the improved potential. Other features of soliton dynamics, in particular curvature of soliton field configurations and the Peierls-Nabarro barrier, are instead significantly changed.

Copyright

© 2007, the Authors. Published by Atlantis Press.

Open Access

This is an open access article distributed under the CC BY-NC license (http://creativecommons.org/licenses/by-nc/4.0/).

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TY  - JOUR
AU  - Giuseppe Gaeta
PY  - 2007
DA  - 2007/02/01
TI  - Solitons in Yakushevich-like models of DNA dynamics with improved intrapair potential
JO  - Journal of Nonlinear Mathematical Physics
SP  - 57
EP  - 81
VL  - 14
IS  - 1
SN  - 1776-0852
UR  - https://doi.org/10.2991/jnmp.2007.14.1.6
DO  - 10.2991/jnmp.2007.14.1.6
ID  - Gaeta2007
ER  -