Figure 6.

The simulation snapshot of the discrete wormlike chain model for duplex DNA forming a left-handed trefoil knot $3.1^{-}$. The hairpin-like G segment used to model the type-II enzyme is shown in red [134]. In the depicted conformation, a T segment (green) is properly juxtaposed with the G segment (red) to initiate the strand passage. The virtual deformation of the chain used to determine the product knot type $K^{\prime }$ after strand passage is indicated by the gray line.