you can model oligomeric proteins with modeller by separating the
different polypeptide chains of the template and the target in the input
alignment with the "/" character:
>P1;template
structure...
AGFWRTYI/AGFWRTYI/AGFWRTYI/AGFWRTYI*
>P1;target
sequence...
-CFYRTYI/-CFYRTYI/-CFYRTYI/-CFYRTYI*
It is pretty straightforward...
Hope this helps,
Oliver
Han Choe wrote:
Dear Modellers,
I'm new to the modeller and recently made a single peptide model using
the program successfully. Now I'm interested in building a model of
a potassium ion channel whose structure is known to be a homotetramer.
What is an easy way to build a model of those multmer proteins?
Cheers,
Han
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Oliver Hucke, Dr.
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