Dynamics of Hydrogen Bonds Coupling on the Specific DNA-Protein Interactions
Soft Condensed Matter
2016-07-07 v1 Pattern Formation and Solitons
Biomolecules
Abstract
We propose a dynamical model depicting the interactions between DNA and a specific binding protein involving long range transmissions. The dynamics rely on the coupling between Hydrogen bonds formed between DNA and protein and between the base pairs because they account for site specificity of the binding. We adopt the Morse potential with coupling terms to construct the Hamiltonian. This model gives rise to a breather excitation, corresponding to the DNA bubble formation, which propagates as the carrier of genetic information. We examine the various kind of possible coupling dynamics and suggest the model feasibility in depicting the renaturation or hybridization processes.
Keywords
Cite
@article{arxiv.1607.01608,
title = {Dynamics of Hydrogen Bonds Coupling on the Specific DNA-Protein Interactions},
author = {Donny Dwiputra and Wahyu Hidayat and Freddy Permana Zen},
journal= {arXiv preprint arXiv:1607.01608},
year = {2016}
}