Modeling Behavior of a Chain of Protein as a Bionanorobot by Changing Environmental Condition

In this paper, the behavior of one chain of small heat shock protein based on molecular dynamic simulation is modeled by the nonlinear identifier. Molecular dynamic simulation is timeconsuming due to the high load of calculations, and providing a model of system behavior facilitates utilizing protein as a bio nano robot in a shorter time. The ARC1 is a molecular Chaperone with swarm structure containing 12 chains. Each chain of small heat shock protein contains two sections; arm and the central cavity which is introduced as a bionanorobot for their special biological structure and their reaction to external forces. The conformational changes of protein with one chain due to external excitation have been analyzed. In addition to system identification of one chain of small heat shock protein, the effect of temperature, pH, and content of solvent are examined on the behavior of bionanorobot arm and a central cavity in a wide range of variation. The results show that minimum number of error is relevant to the adaptive neuro fuzzy system identifier. Modeling the behavior of one chain provides a suitable condition to control the central cavity and bionanorobot arm in a shorter period of time compared to the molecular dynamic simulation.