In this paper, we investigated the influence of dissipation on the dynamics of local conformational perturbations - kinks - in the IFNA17 gene. To simulate the internal mobility of the DNA molecule, we used the sine-Gordon equation with the additional term which imitated the effects of dissipation. To solve this equation, the method of McLaughlin and Scott was applied. The coefficients of the model equation were averaged over the entire sequence of the gene. In this approximation we obtained the time dependences of the kink velocity, coordinate and total energy for three different values of the initial kink velocities: 500 m/s, 800 m/s and 1500 m/s, which did not exceed the sound velocity in DNA.
gene IFNA17, kink, method of McLaughlin and Scott, modified sine-Gordon equation
1. Lawn R.M., Adelman J., Dul, T.J., Gross M., Goeddel D., Ullrich A. DNA sequence of two closely linked human leukocyte interferon genes. Science, 1981, vol. 212, pp. 1159-1162.
2. GenBank: Homo sapiens interferon alpha 17 (IFNA17), mRNA. URL: http://www.ncbi.nlm.nih.gov/nuccore/NM_021268.2 (accessed December 23, 2016)
3. Yakushevich L.V., Krasnobaeva L.A. Traektoriya dvizheniya kinka v gene, kodiruyuschem interferon alpha 17 (IFNA 17). Aktual'nye voprosy biologicheskoy fiziki i himii, 2016, t. 1, c. 136-140. Trajectory of kink movement in the interferon alpha 17 coding gene (IFNA 17). Aktualnye problemy biologicheskoy fiziki i himii, 2016, vol. 1, pp. 136-140 (In Russ.)]
4. McLaughlin D.W., Scott A.C. Perturbation analysis of fuxon dynamics. Phys. Rev. A, 1978, vol. 18, 1652 p.
5. Yakushevich L.V., Krasnobaeva L.A. Vliyanie dissipacii i vneshnego polya na dinamiku lokal'nyh konformacionnyh vozmuscheniy v DNK. Biofizika, 2007, t. 52, № 2, c. 237-243. [Yakushevich L.V., Krasnobaeva L.A. Influence dissipation and external field on thhe dynamics local deformations in DNA. Biophysics, 2007, vol. 52, no. 2, pp. 179-184. (In Russ.)]
6. Yakushevich L.V., Grinevich A.A., Ryasik A.A. Simulation of a kink movement in homogeneous and heterogeneous DNA sequences taking into account the dissipation. RJNAMIM, 2014, vol. 29, pp. 197-204.
