[modeller_usage] Re: Modelling based on two templates - one oligomer and one monomer

[hmad3 AT cam.ac.uk]

Apologies - I just found out that someone else asked basically the same question months prior:
https://salilab.org/mm/hyperkitty/list/modeller_usage@listsrv.ucsf.edu/thread/353R467UACJSSEX2RHAO7JP76WRD26QI/

I presume that in the second scenario, I'd have three templates, a la:
temp1    AAAA/AAAA/BBBB/BBBB/BBBB*
temp2    aaaa/----/----/----/----*
temp3    ----/-----/bbbb/----/----*
model    aaaa/aaaa/bbbb/bbbb/bbbb*

What if I am modelling with ligands? Would the following be right?
temp1    AAAA./AAAA/BBBB./BBBB/BBBB*
temp2    aaaa-/----/----/----/----* 
temp3    ----/-----/bbbb-/----/----*
model    aaaa./aaaa/bbbb./bbbb/bbbb*

(The .pdb files for temp2 and temp3 have no ligands. Should the ligand be indicated? If so, with a "-" or "."?)