Dear Gromacs users My simulation box contains dppc lipid bilayer containing a membrane protein. I want to calculate the angle between P-N in dppc head group and the bilayer normal (z-axis). We want to use the gromacs gangle command for this purpose.
The command asks us to define a vector for P-N, while for the axis z it does not require vector definition. I can make an index group containing all the P and N atoms of the dppc headgroup, but I do not know how to make a vector from these two endpoints to give it to the gangle command for angle calculation. Your help would be greatly appreciated. Best regards Delara -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org.
