论文标题
化学反应网络中的自由能转导：从酶到新陈代谢
Free-Energy Transduction in Chemical Reaction Networks: from Enzymes to Metabolism
论文作者
论文摘要
我们提供了自由化转导的严格定义及其在稳态下运行的任意效率（线性或非线性）开放化学反应网络（CRN）。我们的方法基于对化学计量矩阵和化学静态物种（即环境恒定浓度保持的物种）的了解，以识别有助于熵产生的基本电流和力。当由于沿其自发方向流动的其他过程，将静止平衡的过程的电流朝其自发方向（设置）驱动到其自发方向（设置）时，就会发生转导。在这些方案中，开放的CRN作为热力学机器运行。在使用玩具模型来体现了这些一般思想之后，我们分析了中央能量代谢。我们将基本电流与代谢途径联系起来，并讨论它们能够传递自由能的效率。
We provide a rigorous definition of free-energy transduction and its efficiency in arbitrary -- linear or nonlinear -- open chemical reaction networks (CRNs) operating at steady state. Our method is based on the knowledge of the stoichiometric matrix and of the chemostatted species (i.e. the species maintained at constant concentration by the environment) to identify the fundamental currents and forces contributing to the entropy production. Transduction occurs when the current of a stoichiometrically balanced process is driven against its spontaneous direction (set by its force) thanks to other processes flowing along their spontaneous direction. In these regimes, open CRNs operate as thermodynamic machines. After exemplifying these general ideas using toy models, we analyze central energy metabolism. We relate the fundamental currents to metabolic pathways and discuss the efficiency with which they are able to transduce free energy.
