bigc wrote:
> Hi Gurus,
>> I'm a newbee to bioinfomatics. It seems that via the secondary
> structure we can roughly predict the protein's 3D structure.
Err no. Not really. There are usually many different folds which have
the same linear secondary structure organisation.
The closest you can get to what you describe is doing Fold Fitting (or
threading). This uses secondary structure and threading information to
predict a fold for a sequence which may have no obvious homologs which
have had their structures solved.
Take a look at:
http://www.sbg.bio.ic.ac.uk/~3dpssm/http://123d.ncifcrf.gov/123D+.htmlhttp://ffas.ljcrf.edu/ffas-cgi/cgi/ffas.pl
Hope this helps
Simon.
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