Li Wei, Dou Shuo-Xing, Xie Ping, Wang Peng-Ye
Laboratory of Soft Matter Physics, Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100080, China.
Phys Rev E Stat Nonlin Soft Matter Phys. 2006 May;73(5 Pt 1):051909. doi: 10.1103/PhysRevE.73.051909. Epub 2006 May 19.
Chromatin-remodeling complexes such as SWI/SNF and RSC of yeast can perturb the structure of nucleosomes in an ATP-dependent manner. Experimental results prove that this chromatin remodeling process involves DNA bending. We simulate the effect of DNA bending, caused by chromatin-remodeling complexes, on directional sliding of histone octamers by Brownian dynamics simulation. The simulation results show that, after a DNA loop being generated at the side of a nucleosome, the histone octamer slides towards this DNA loop until the loop disappears. The DNA loop size is an important factor affecting the process of directional sliding of the histone octamer.
诸如酵母中的SWI/SNF和RSC等染色质重塑复合物能够以ATP依赖的方式扰乱核小体的结构。实验结果证明，这种染色质重塑过程涉及DNA弯曲。我们通过布朗动力学模拟来模拟由染色质重塑复合物引起的DNA弯曲对组蛋白八聚体定向滑动的影响。模拟结果表明，在核小体一侧产生DNA环后，组蛋白八聚体朝着该DNA环滑动，直至环消失。DNA环的大小是影响组蛋白八聚体定向滑动过程的一个重要因素。
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