[gmx-users] peptide orientation with respect to bilayer normal

[shivangi nangia]

Hello All,


I wish to compute the tilt/orientation of my embedded peptide (over the
course of a trajectory) with respect to bilayer normal.

Is there any tool to use that.

I have tried to use g_angle by making any index group of an atom from the
peptide and two others from the lipid (index file is required, 3 atoms),
but I am not sure if I am getting what I am aiming for.

Kindly suggest.

Thanks,
sxn