Membrane proteins are the major component of plasma membranes, and they play crucial roles in all organisms. To understand the influence of the presence of KcsA channel on cell membrane electroporation induced by picosecond pulse trains (psPT), in this paper, the electroporation of KcsA membrane protein system and bare lipid bilayer system (POPC) with the applied psPT are simulated using molecular dynamics (MD) method. First, we find that the average pore formation time of the KcsA system is longer than the bare system with the applied psPT. In the KcsA system, water protrusions appear more slowly. Then, the system size effects of psPT in the MD simulations are investigated. When the system size decreases, the average pore formation time of small KcsA membrane protein system is shorter than the bare system with the applied psPT. It is found that the psPT makes the protein fluctuation of small system increase greatly; meanwhile the instability of protein disturbs the water and then affects the water protrusion appearance time. Furthermore, it shows that the protein fluctuation of constant electric field is smaller than that of psPT and no field, and protein fluctuation increases with the psPT repetition frequency increasing.

中文翻译：

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KcsA 通道对皮秒脉冲序列诱导的脂质双层电穿孔的影响。

膜蛋白是质膜的主要成分，它们在所有生物体中都起着至关重要的作用。为了解 KcsA 通道的存在对皮秒脉冲串 (psPT) 诱导的细胞膜电穿孔的影响，本文使用分子生物学模拟了应用 psPT 的 KcsA 膜蛋白系统和裸脂双层系统 (POPC) 的电穿孔。动力学（MD）方法。首先，我们发现 KcsA 系统的平均孔隙形成时间比应用 psPT 的裸系统长。在 KcsA 系统中，水突起出现得更慢。然后，研究了 psPT 在 MD 模拟中的系统尺寸效应。当系统尺寸减小时，小 KcsA 膜蛋白系统的平均孔形成时间比应用 psPT 的裸系统短。发现psPT使小系统的蛋白质波动大大增加；同时蛋白质的不稳定性扰乱了水分，进而影响了水突出现的时间。进一步表明，恒定电场的蛋白质波动小于psPT和无电场的蛋白质波动，并且蛋白质波动随着psPT重复频率的增加而增加。