Hi Stephane,
You don't have phi/psi angles, so determining secondary structure is a
bit problematic. What you can do is draw a trace through the backbone
beads and set the secondary structure representation explicitly.
You'll have to make sure to exclude connections between chains.
set cartoon_tr
Hello everybody,
I have done several MD simulations with the Martini force field of systems that
contain a small protein and surfactant with GROMACS. It is possible to show
with pymol the secondary structure of the protein with a cartoon representation
and the detergent molecules with beads at
