Computer Simulation of Energy Transfer Processes in Elastic Networks of Molecular Machines

The dynamics of complex networks is one of the actively researched aspects of networks, and is aimed at understanding between what structural elements of the communication network are strong, and between what are weak. The study of local bridges (edges, the removal of which greatly changes the length of certain paths) is one of the characteristic examples. The dynamics of complex networks are considered in two contexts - as a change in the network topology in the course of its evolution, or as a change in the state of the network due to the activity of its nodes. In this paper we consider the second context of network dynamics, the change in the activity of network nodes with a given topology for some initial excitation of the network. The object of the research was a structured elastic network of an artificial molecular machine. For this object, the evolution of the network state under different excitation has been investigated. Two types of initial excitation-the entire elastic network of a molecular machine and only the nodes that are in the interface zone of structured network elements simulating the active center of a molecular machine-were considered. According to the plan, this process simulated the transfer of energy in molecular structures such as molecular machines. To reveal its features, it was compared with the spread of excitation in purely random Erdos-Renyi networks.