Solitons in a double pendulums chain model, and DNA roto-torsional dynamics

DOI10.2991/JNMP.2007.14.1.10zbMATH Open1173.37069arXivq-bio/0604027OpenAlexW2097937246MaRDI QIDQ3607644FDOQ3607644

Authors: Roberto De Leo, Giuseppe Gaeta, Mariano Cadoni 

Publication date: 26 February 2009

Published in: Journal of Nonlinear Mathematical Physics (Search for Journal in Brave)

Abstract: It was first suggested by Englander et al to model the nonlinear dynamics of DNA relevant to the transcription process in terms of a chain of coupled pendulums. In a related paper [q-bio.BM/0604014] we argued for the advantages of an extension of this approach based on considering a chain of double pendulums with certain characteristics. Here we study a simplified model of this kind, focusing on its general features and nonlinear travelling wave excitations; in particular, we show that some of the degrees of freedom are actually slaved to others, allowing for an effective reduction of the relevant equations.

Full work available at URL: https://arxiv.org/abs/q-bio/0604027

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zbMATH Keywords

solitonsDNA dynamicsdouble pendulumnon-linear coupled equations

Mathematics Subject Classification ID

Protein sequences, DNA sequences (92D20) Dynamical systems in biology (37N25) Soliton equations (35Q51)

Cites Work

• Title not available (Why is that?)
• Solitons in Molecular Systems
• Nonlinear dynamics and statistical physics of DNA
• Nonlinear DNA dynamics: Hierarchy of the models
• Solitons in a nonlinear DNA model
• Solitons in Yakushevich-like models of DNA dynamics with improved intrapair potential

Cited In (7)

• Propagation of twist solitons in fully inhomogeneous DNA chains
• Sine-Gordon solitons, auxiliary fields and singular limit of a double pendulums chain
• Carleman estimate for wave equations coupled with the second order terms
• Nonlinear dynamics of DNA chain
• Stationary solitary and kink solutions in the helicoidal Peyrard-Bishop model of DNA molecule
• Speed selection for coupled wave equations
• Solitary waves in helicoidal models of DNA dynamics

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