Re: [Jmol-users] Color structural alignment by deviation "RMSD"?

[<ang...@ua...>]

Dear Eric

I was about to ask a similar question as Bob:
I understand from your explanation you do not rely on the 2 proteins having 
the same sequence.
So my question is how do you imagine the distance can be checked, i.e. 
from which atom/residue to which one?  Alpha carbon by order in the chain, 
maybe?
A loop in JmolScript might be used for this once the intended correlation is 
well defined.