Halder Ritaban, Chu Zhen Tao, Ti Rujuan, Zhu Lizhe, Warshel Arieh
Department of Chemistry, University of Southern California, Los Angeles, California 90089-1062, United States.
Warshel Institute for Computational Biology, School of Medicine, The Chinese University of Hong Kong, Shenzhen, Guangdong 518172, China.
J Am Chem Soc. 2024 Oct 5. doi: 10.1021/jacs.4c09528.
The origin of the unique directionality of myosin has been a problem of fundamental and practical importance. This work establishes in a conclusive way that the directionality is controlled by tuning the barrier for the rate-determining step, namely, the ADP release step. This conclusion is based on exploring the molecular origin behind the reverse directionality of myosins V and VI and the determination of the origin of the change in the barriers of the ADP release for the forward and backward motions. Our investigation is performed by combining different simulation methods such as steer molecular dynamics (SMD), umbrella sampling, renormalization method, and automated path searching method. It is found that in the case of myosin V, the ADP release from the postrigor (trailing head) state overcomes a lower barrier than the prepowerstroke (leading head) state, which is also evident from experimental observation. In the case of myosin VI, we noticed a different trend when compared to myosin V. Since the directionality of myosins V and VI follows a reverse trend, we conclude that such differences in the directionality are controlled by the free energy barrier for the ADP release. Overall, the proof that the directionality of myosin is determined by the activation barrier of the rate-determining step in the cycle, rather than by some unspecified dynamical effects, has general importance.
肌球蛋白独特方向性的起源一直是一个具有根本重要性和实际意义的问题。这项工作以确凿的方式确定,方向性是通过调节速率决定步骤(即ADP释放步骤)的能垒来控制的。这一结论是基于对肌球蛋白V和VI反向方向性背后的分子起源进行探索,以及对正向和反向运动中ADP释放能垒变化起源的确定。我们的研究通过结合不同的模拟方法来进行,如引导分子动力学(SMD)、伞形采样、重整化方法和自动路径搜索方法。研究发现,在肌球蛋白V的情况下,从僵直后(拖尾头部)状态释放ADP克服的能垒低于动力冲程前(领先头部)状态,这从实验观察中也很明显。在肌球蛋白VI的情况下,与肌球蛋白V相比,我们注意到了不同的趋势。由于肌球蛋白V和VI的方向性呈现相反趋势,我们得出结论,这种方向性的差异是由ADP释放的自由能垒控制的。总体而言,证明肌球蛋白的方向性是由循环中速率决定步骤的活化能垒决定的,而不是由某些未指明的动力学效应决定的,具有普遍重要性。