Dear all,
I have to model a chimeric protein of two known sequnces. I have gone
through the previous archives and have come across the emails of people who
have done it.
however, I am confused with how to start the first alignment to get the
following alignment file
>P1;proteinA
structureX:proteinA
aaaaaaaaaaaaaaaaaaaaaaaaaaaa----------------------------------*
>P1;proteinB
structureX:proteinB
----------------------------bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb*
>P1;chimera
sequence:chimera
…
[View More]aaaaaaaaaaaaaaaaaaaaaaaaaaaabbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb*
is this the .ali file to give for alignment. Which script should I use.
Kindly help with which is the correct script to use.
Thank you
Regards
Ayesha Fatima
QIUP, Ipoh, Perak
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Hi,
The bend of the modeled three strands long sheet differs too much from
the template. Independently that perhaps that have meaning. I want to
make closer to the template.
It is not clear (or I am missing it ) if is possible restrains between
model and template.
Thanks in advance
Mario
--
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Mario A. Bianchet, Ph.D. | bianchet(a)jhmi.edu
Assistant Professor of Neurology, | http://abaco.med.jhmi.edu/~…
[View More]bianchet
Biophysics & Biophysical Chemistry | 725 N.Wolfe st, WBSB 608B
| Baltimore, Maryland, 21205, USA
Structural Enzymology | Phones: +1 (443) 591-7583 (cell)
& Thermodynamics Group | +1 (410) 614-8221(work)
Johns Hopkins School of Medicine | fax: +1 (410) 955-0637
=========================================================================
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