[gmx-users] rmsd on homologous protein structure

[Tatsiana Kirys]

Hi,

i want to calculate rmsd on homologous protein structures that have different residue numbers. 
As far as i understood g_rms gives only rmsd of the same structure in different configurations, but it doesn't fit homologous protein structures? 

In Option -f2 can i provide a trajectory of a homologous protein structure of it also have to be a reserence structure trajectory (which is provided in -s)?

many many thanks
Tatsiana