A computational model was developed for modeling the long-time conformational dynamics of extended regions of dsDNA in solution subjected to external and localized torques. The chain, linear when relaxed, was looped to form two open but topologicallly constrained subdomains. The 100 μs response of a 477-base pair B-DNA template was simulated by Brownian dynamics to the localized torque generated by the prokaryotic transcription ensemble. The results reveal the superhelicity to be simultaneously right handed in one subdomain and left handed in the other.
ASJC Scopus subject areas
- Atomic and Molecular Physics, and Optics