Walcott Sam
Molecular Physiology and Biophysics, University of Vermont, Burlington, Vermont 05405, USA.
J Chem Phys. 2008 Jun 7;128(21):215101. doi: 10.1063/1.2920475.
As experimental techniques in biophysics have progressed at the single molecule level, there has been considerable interest in understanding how external mechanical influences (such as load) affect chemical reactions. The majority of biophysical studies investigating load-dependent kinetics use an equation where the rate constant exponentially depends on force, which is sometimes called Bell's equation. This equation requires the determination of two parameters that describe the potential energy-strain function: k(0), which is the reaction rate in the absence of load, and x(c), which is the difference in strain between the reactant and transition states. However, there have been theoretical studies based on Kramers' theory suggesting that the rate constant should have load-dependent pre-exponential terms and nonlinear load-dependent terms in the exponential. Kramers' theory requires an exact knowledge of the potential energy-strain function, which is in general not known for an experimental system. Here, we derive a general approximation of Kramers' theory where the potential energy-strain function is described by five parameters, which can, for small loads, be reduced to four-, three-, and finally to two parameters (Bell's equation). We then use an idealized physical system to validate our approximations to Kramers' theory and show how they can predict parameters of interest (such as k(0) and x(c)) better than Bell's equation. Finally, we show previously published experimental data that are not well fitted by Bell's equation but are adequately fitted by these more exact equations.
随着生物物理学的实验技术在单分子水平上取得进展,人们对理解外部机械影响(如负载)如何影响化学反应产生了浓厚兴趣。大多数研究负载依赖性动力学的生物物理研究使用一个方程,其中速率常数指数地依赖于力,这个方程有时被称为贝尔方程。该方程需要确定两个描述势能-应变函数的参数:k(0),即无负载时的反应速率;以及x(c),即反应物和过渡态之间的应变差。然而,基于克莱默斯理论的理论研究表明,速率常数应该具有负载依赖性的指数前因子项和指数中的非线性负载依赖性项。克莱默斯理论需要精确了解势能-应变函数,而对于实验系统来说,这通常是未知的。在这里,我们推导了克莱默斯理论的一个通用近似,其中势能-应变函数由五个参数描述,对于小负载,这些参数可以简化为四个、三个,最终简化为两个参数(贝尔方程)。然后,我们使用一个理想化的物理系统来验证我们对克莱默斯理论的近似,并展示它们如何比贝尔方程更好地预测感兴趣的参数(如k(0)和x(c))。最后,我们展示了以前发表的实验数据,这些数据不能很好地用贝尔方程拟合,但能用这些更精确的方程充分拟合。