Can anyone suggest me any software or bioinformatic tool to identify whether unknown or hypothetical protein have protease domain in it or not ?

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Manuele Martinelli

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

Rob Keller

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.