Hi Nicolas,
the easiest way is to build the corresponding alignment, that reflects all the
template-target sequence equivalences along the whole complex.
For a two-chain situation you can check FAQ 4 on page 107 in the manual.
best wishes,
Andras
Dr Nicolas Le Novere wrote:
>
> Dear modellers,
>
> My template is a homooligomer. I would like to model similar oligomers
> either with N times the same sequence, or with different homologous
> sequences. What is the best format for the alignment and/or top
>
> (How to force MODELLER to model the sequence X on the chain A and the
> sequence Y on the chaine B?)
>
> Regards,
>
> --
> Dr Nicolas Le Novère http://www-alt.pasteur.fr/~lenov
> Dpt of Zoology, Univ of Cambridge, Downing street, Cambridge CB2 3EJ, UK
> tel: +44 1223 336623 fax: +44 1223 336676 e-mail:
--
,
Andras Fiser, PhD # phone: (212) 327 7216
The Rockefeller University # fax: (212) 327 7540
Box 270, 1230 York Avenue # e-mail:
New York, NY 10021-6399, USA # http://salilab.org/~andras