Internal nonlinear dynamics of a short lattice DNA model in terms of propagating kink-antikink solitons.
We study the internal nonlinear dynamics of an inhomogeneous short lattice DNA model by solving numerically the governing discrete perturbed sine-Gordon equations under the limits of a uniform and a nonuniform angular rotation of bases. The internal dynamics is expressed in terms of open-state configurations represented by kink and antikink solitons with fluctuations. The inhomogeneity in the strands and hydrogen bonds as well as nonuniformity in the rotation of bases introduce fluctuations in the profile of the solitons without affecting their robust nature and the propagation. These fluctuations spread into the tail regions of the soliton in the case of periodic inhomogeneity. However, the localized form of inhomogeneity generates amplified fluctuations in the profile of the soliton. The fluctuations are expected to enhance the denaturation process in the DNA molecule.
Centre for Nonlinear Dynamics, School of Physics, Bharathidasan University, Tiruchirapalli 620 024, India.
M
M
Vanitha
M
M
Daniel
D003198:Computer Simulation; D004247:DNA / Q000737:chemistry* / Q000648:ultrastructure*; D008956:Models, Chemical; D008958:Models, Molecular; D017711:Nonlinear Dynamics; D009690:Nucleic Acid Conformation; D009691:Nucleic Acid Denaturation
D004247:DNA