When visualize my simulation using pymol, one strand is going out of the box while other strand is remaining inside. To do the simulation, do i have to constraint the backbone?
This is a periodic boundary effect. It happens in all simulations using PBC. Use trjconv to re-image the trajectory (see the GROMACS website or manual for details).
This is a periodic boundary effect. It happens in all simulations using PBC. Use trjconv to re-image the trajectory (see the GROMACS website or manual for details).