Effects of activity distance on dynamics of bio-molecules in the multidimensional potential energy model

Activity distance, which is commonly used to describe the transformation from a bound state to a transition state in the potential energy landscape model, is the key factor in the bio-molecular system to study dynamic properties. Adopted both in phenomenological theory and the statistical model, activity distance is the fundamental parameter to describe the kinetic characteristics of bio-molecules and is usually connected with the change in the pulling force F. The effects of activity distance Δ x‡ are easy to be detected in a single dimensional landscape model because the force only expresses the mechanical work − Fx, which mainly overlaps with the fluctuation of the configuration of bio-molecules. However, as the force cannot affect the transformation directly in the multidimensional landscape model, the deflection angle φ is introduced in our work to discuss the pulling force, which has partial effects on the Q dimension. By comparing the mean waiting time ⟨ t⟩ under the conditions of normal kinetics and dynamic disorder, in this study, we show the typical results from the effects of activity distance on the multidimensional potential energy model.