Forming superhelix of double stranded DNA from local deformation

DNA wrapping is the process of the conformation change of the double helical structure to form a nucleosomal DNA. The activation of the process is from the local deformation caused by the contact with the core structure, however its meta dynamics for self assembly is unknown. In this paper, the theoretical modeling addresses the mechanism of the superhelix forming started from the local deformation on the strand by segmentizing the deformation for each base pair so that the curvature formation process can be described with the nonlocality and the nonlinear elasticity of DNA strand which is recently reported. The quantization of the effect of the bend-twist coupling deformation of the double helix characterizes the sequence dependent dynamics of the superhelix and accessible path in meta structure composed of double helix. Coarse-grained molecular dynamic simulation validates the description of the curvature forming process which traverses the pathway to overcome its persistence length.