Software for scanning of specific aa sequence in proteins
Posted 11 January 2013 - 02:31 PM
I was wondering if there is a software or a database (free preferably) that is able to scan for the presence of specific amino acid sequences/ motifs in proteins. I am interested in finding a phosphodegron motif. It would be cool if the accessibility to this motif could be measured (put it in the context of secondary and tertiary structure), but this feature is not crucial, since I can potentially check it later (it will be more labor-intensive though). Thanks in advance for any comments.
Posted 13 January 2013 - 04:51 PM
Posted 31 January 2013 - 01:21 PM
As I said I tried using blast, but it seems pretty useless for screens. I found this software, which has its limitations as well, but is quite useful and is an excellent starting point:
It is really easy to use and you can just copy the results into excel and create tables you can browse at your convenience. Most importantly, it is free.
Posted 31 January 2013 - 02:12 PM