计算模型预测了Rho GTPase功能与Plexin跨膜受体GAP活性在Rap1b上,通过动态全变化
Nisha Bhattarai1, Lindsay Morrison2, Alexandre F Gomes2
1Department of Physiology and Biophysics, Case Western Reserve University, Cleveland, OH 44106, USA.
bioRxiv : the preprint server for biology
|June 4, 2025
概括
模拟了plexin-GTPase相互作用,揭示了Rac1动态比Rnd1.1更受改变. 与Rac1不同,Rnd1在没有Rap1b的情况下与Plexin-B1结合更强,从而增强对细胞信号的理解.
科学领域:
- 分子生物学分子生物学
- 细胞信号传递 细胞信号传递
- 生物物理学的生物物理.
背景情况:
- 普雷克辛-赛马福林信号传递对于细胞迁移,神经元发育和免疫反应至关重要.
- 素通过细胞内域结合活性Rho和Ras家族GTPase,包括Rho-GTPase结合域 (RBD) 和GTPase激活蛋白 (GAP) 分段.
- 影响plexin-GTPase相互作用的结构动态和构造变化,特别是双重或单一的GTPase结合,仍然不清楚.
研究的目的:
- 通过分子动力学 (MD) 模拟,研究Plexin-B1与Rap1b,Rnd1和Rac1结合时的构造差异和动态.
- 为了比较不同结合条件下的plexin-GTPase复合体的网络动态和相互作用稳定性 (双与单个GTPase).
主要方法:
- 对plexin-GTPase结合系统进行了六个不同的分子动力学 (MD) 模拟.
- 分析了结构变化,网络中心性和交互稳定性.
- 与实验性-交换质谱法 (HDX-MS) 数据对比验证的计算模型.
主要成果:
- 与Rnd1相比,Rac1的动态表现出更大的改变,受到plexin的GAP域与Rap1b的结合状态的影响.
- 在没有Rap1b的情况下,Rnd1与Plexin-B1表现出更强,更稳定的相互作用.
- 与Rnd1.1相比,Rac1与Plexin-B1的连接较少且不太稳定.
- MD模拟在很大程度上与实验HDX-MS的发现一致.
结论:
- 计算模型提供了Plexin-GTPase相互作用的分子机制的见解.
- 了解这些动态是解读复杂的GTPase介导信号通路的关键.
- 这项研究突出了GTPases与Plexin-B1.1的差异性结合亲和关系和动态行为.
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