Sompornpisut Pornthep, Pandey R B
Center of Excellence in Computational Chemistry, Department of Chemistry, Chulalongkorn University, Bangkok, 10330 Thailand.
School of Mathematics and Natural Sciences, University of Southern Mississippi, Hattiesburg, MS 39406-5043 USA.
JOM (1989). 2021;73(8):2347-2355. doi: 10.1007/s11837-021-04711-0. Epub 2021 May 26.
Self-organizing structures of CoVE proteins have been investigated using a coarse-grained model in Monte Carlo simulations as a function of temperature () in a range covering the native (low ) to denatured (high ) phases. The presence of even a few chains accelerates the very slow dynamics of an otherwise free protein chain in the native phase. The radius of gyration depends nonmonotonically on temperature and increases with the protein concentration in both the native and denatured phase. The density of organized morphology over residue-to-sample length scales () is quantified by an effective dimension () that varies between ~ 2 at high to ~ 3 at low temperatures at ~ with an overall lower density ( ~ 2) on larger scales. The magnitude of depends on temperature, length scale, and concentration of proteins, i.e., ~ 3.2 at ~ R, ~ 2.6 at > , and ~ 2.0 at ≫ , at = 0.024.
已使用粗粒度模型在蒙特卡罗模拟中研究了CoVE蛋白的自组织结构,该模拟是在涵盖天然态(低温)到变性态(高温)阶段的温度范围内进行的。即使存在几条链,也会加速天然态中原本自由的蛋白质链非常缓慢的动力学过程。回转半径非单调地依赖于温度,并且在天然态和变性态中均随蛋白质浓度增加。在残基到样品长度尺度()上,有组织形态的密度通过一个有效维度()来量化,该有效维度在高温下约为2,在低温下约为3,在约时,在较大尺度上总体密度较低(约为2)。的大小取决于温度、长度尺度和蛋白质浓度,即在 = 0.024时,在约R时约为3.2,在 > 时约为2.6,在 ≫ 时约为2.0。