Re: oligomers

[Andras Fiser <andras@tuba>]

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: nl223 AT cus.cam.ac.uk

-- 
    ,
Andras Fiser, PhD            # phone: (212) 327 7216
The Rockefeller University   # fax:   (212) 327 7540 
Box 270, 1230 York Avenue    # e-mail:fisera AT rockefeller.edu
New York, NY 10021-6399, USA # http://salilab.org/~andras