[Chimera-users] Enquiry: Match Maker

Anna Hernandez annahernandezduran at gmail.com
Tue May 6 02:59:50 PDT 2014


I have a question regarding structural alignments with Match Maker.
I would like to know if there is any way to obtain a list of all possible
alignment solutions (or a subset) tested by Match Maker, instead of only
the "best" one, so that I can further assess the different options manually.

Specifically I am trying to find an homologous substructure/motif from my
template structure within a query structure. The pattern to be searched is
rather small as compared to the whole protein and it can be aligned in
multiple positions. I would like to assess each of the possibilities more
carefully based on the biological knowledge of the protein.

Thank you in advance.

Best wishes,

Anna Hernandez
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