I have tried ProtIdent but could not rely on it completely
Dear Anju
on simple software thay yoy can certanilly try is SMART from EMBL http://smart.embl-heidelberg.de/ is able to recognize pfam domain. Of course it will recognize only proteins with very tipical protease domains
good luck
Manuele
ciao
I agree with Manuele Martinelli . You can try SMART!
Varsha
Dear Manuele,
As far as I can judge (and understand what you are looking for) you have one of the best, if not the best, prediction tool to date.
I’m not sure about what you are looking for but did you checked the following tool?
iProt-Sub:
https://academic.oup.com/bib/advance-article/doi/10.1093/bib/bby028/4979587
It is the ‘improved’ version of PROSPER. This paper gives an excellent overview of different tools and (often) the rationale behind them as well.
Hope this is of any help to you.
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