Simulation Model of Electron Transfer on Inner Photosynthetic Membrane
The simulative platform is represented as a region in three-dimensional space. The region includes several compartments, which are: a section of a twofold photosynthetic membrane, intermembranous space (lumen), and the area outside the membrane (stroma). The model contains mobile electron transmitters (plastocyanin in lumen, ferredoxyne in stroma, and plastoquinone in the membrane), as well as protein complexes of photosystems I and II and a cytochrome b6f complex, which are built in the membrane.
The parameters of the model are geometrical dimensions of the section of the photosynthetic membrane being modeled and quantity (density) of complexes
Movement of the mobile transmitters is described by the Brownian dynamics. Diffusion coefficients of the transmitters are prescribed. The model takes into account collisions of transmitters and protein complexes.
Reactions of transmitters and complexes are described through interaction radius d and reaction probability p. If an electron transmitter approaches a landing site on a complex closer than for distance d, then a coupling and the reaction of electron transfer are possible with probability p.