[chimerax-users] Residue priority for Matchmaker alignment?

[Steven Truong]

Dear ChimeraX Admins,

I have a question about the Matchmaker (mmaker) command.  If I wanted to specify which residues to prioritize in the alignment, how would I specify that in the command line?  Is there a way to do this without changing the alignment algorithm/scoring matrix?  I have tried tinkering with the matrix but wasn’t able to get it to work.  I see that you can specify which chains to align, but I can’t seem to find the equivalent for residue ID numbers.

Thank you for your help,
Steven Truong
Vendruscolo Lab
Cambridge University

 [cid:280F6707-7208-4DBD-9A6C-ED9A0DF8E3BF]
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