School of Biological Sciences, University of Edinburgh, Edinburgh, United Kingdom.
J Chem Phys. 2020 Oct 28;153(16):164113. doi: 10.1063/5.0017573.
We derive an approximate closed-form solution to the chemical master equation describing the Michaelis-Menten reaction mechanism of enzyme action. In particular, assuming that the probability of a complex dissociating into an enzyme and substrate is significantly larger than the probability of a product formation event, we obtain expressions for the time-dependent marginal probability distributions of the number of substrate and enzyme molecules. For delta function initial conditions, we show that the substrate distribution is either unimodal at all times or else becomes bimodal at intermediate times. This transient bimodality, which has no deterministic counterpart, manifests when the initial number of substrate molecules is much larger than the total number of enzyme molecules and if the frequency of enzyme-substrate binding events is large enough. Furthermore, we show that our closed-form solution is different from the solution of the chemical master equation reduced by means of the widely used discrete stochastic Michaelis-Menten approximation, where the propensity for substrate decay has a hyperbolic dependence on the number of substrate molecules. The differences arise because the latter does not take into account enzyme number fluctuations, while our approach includes them. We confirm by means of a stochastic simulation of all the elementary reaction steps in the Michaelis-Menten mechanism that our closed-form solution is accurate over a larger region of parameter space than that obtained using the discrete stochastic Michaelis-Menten approximation.
我们推导出了描述酶促反应机制米氏动力学的化学主方程的近似闭式解。特别是,假设复合物解离为酶和底物的概率明显大于产物形成事件的概率,我们得到了随时间变化的底物和酶分子数的边际概率分布的表达式。对于δ函数初始条件,我们表明,底物分布在任何时候都是单峰的,或者在中间时间变成双峰的。这种瞬态双峰性没有确定论对应物,当初始底物分子数远大于酶分子总数,并且酶-底物结合事件的频率足够大时,就会出现这种双峰性。此外,我们表明,我们的闭式解与通过广泛使用的离散随机米氏近似简化的化学主方程的解不同,其中底物衰减的倾向对底物分子数呈双曲依赖关系。差异的产生是因为后者没有考虑酶数量的波动,而我们的方法包括了这些波动。我们通过对米氏动力学机制中的所有基本反应步骤进行随机模拟,证实了我们的闭式解在比使用离散随机米氏近似得到的解更大的参数空间区域是准确的。