Hi,
I have a really just awful way of doing this and was wondering if there is a
pymol solution that would make it easier.
Here is the problem.
Given two protein sequences, align their corresponding amino acids. The
position of each of the strings is not known, just the sequence.
Ex.
Protein 1 - XXXXXXXXXXXXXXYYDFGHSFGXXXXXXXXXXX
Protein 2 - - XXXXXXYYDFGHSFGXXXXXXXXXXX
What I would like is to select the sequences (pseudocode obviously).
select align_1 ,protein_1 and YYDFGHSFG
select align_2, protein_2 and YYDFGHSFG
align align_1, align_2
RMSD is X.XX
Does this functionality exist?
Jordan
(apologize if you receive this in duplicate)
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