Interaction e?ects of DNA, RNA-polymerase, and cellular ?uid on the local dynamic behaviors of DNA

更新时间:2023-05-28

【摘要】In view of the complex structure and environment, the dynamic analysis on deoxyribonucleic acid(DNA) is a challenge in the biophysics ?eld. Considering the local interaction with ribonucleic acid(RNA)-polymerase as well as the dissipative e?ect of cellular ?uid, a coupling sine-Gordon-type dynamic model is used to describe the rotational motions of the bases in DNA. First, the approximate symmetric form is constructed.Then, the wave form and the wave velocity of the kink solution to the proposed dynamic model are investigated by a Runge-Kutta structure-preserving scheme based on the generalized multi-symplectic idea. The numerical results indicate that, the strengthening of the local interaction between DNA and RNA-polymerase described by the coupling potential makes the form of the kink solution steep, while the appearance of the friction between DNA and cellular ?uid makes the form of the kink solution ?at. In addition,the appearance of the friction decreases the velocities of both the symplectic con?guration and the anti-symplectic con?guration with di?erent degrees. The above ?ndings are bene?cial to comprehend the DNA transcription mechanism.

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