Institute of Cell Biophysics RAS, Institutskaya str. 3, Pushchino, Moscow Region 142290, Russia; Institute of Theoretical and Experimental Biophysics RAS, Institutskaya str. 3, Pushchino, Moscow Region 142290, Russia.
Institute of Cell Biophysics RAS, Institutskaya str. 3, Pushchino, Moscow Region 142290, Russia.
J Theor Biol. 2018 Sep 14;453:68-77. doi: 10.1016/j.jtbi.2018.04.036. Epub 2018 Apr 27.
In this work, we study numerically the influence of the DNA torque on the movement of transcription bubbles in the potential field formed by the sequence of plasmid PTTQ18. To imitate the movement, we apply a modified sine-Gordon equation with the two additional terms that describe the effects of dissipation and the action of the DNA torsion torque, and with the coefficients that depend on the sequence of bases. We obtain the trajectories of the transcription bubbles and investigate the dependence of the trajectories on the initial bubble velocity and the DNA torsion torque. It is shown that not the initial bubble velocity but the DNA torsion torque governs the trajectories of the transcription bubbles.
在这项工作中，我们通过数值方法研究了 DNA 扭力矩对转录泡在 PTTQ18 质粒序列形成的势场中运动的影响。为了模拟这种运动，我们应用了一个修正的正弦-戈登方程，其中包含两个附加项，分别描述耗散效应和 DNA 扭力矩的作用，并且系数取决于碱基序列。我们得到了转录泡的轨迹，并研究了轨迹对初始泡速度和 DNA 扭力矩的依赖性。结果表明，控制转录泡轨迹的不是初始泡速度，而是 DNA 扭力矩。
