Dan Jacobson x-8453
danj at WELCHGATE.WELCH.JHU.EDU
Mon Jun 8 13:01:57 EST 1992
Richard Williams asks:
>Does anyone know if there are any databases of DNA/protein 'motifs' on
>the net that I can use to screen sequences for regions of homology with known
>functional motifs? (- e.g. To scan a protein sequence for potential RNA
>binding regions). I don't need overall sequence comparison/alignment, but
>rather a tool to pick out potential regions of interest in sequences of poorly
For protein motifs there is PROSITE which can be obatained by anonymous ftp from
(among other places) ncbi.nlm.nih.gov in the repository/prosite directory.
There are two programs which can be used to scan sequences with this database.
For Unix and Vax/VMS boxes there is prosearch which can be obtained from
(among other places) ftp.bio.indiana.edu in the molbio/search directory.
Prosearch is being phased out for PCs.
For Macs there is Macpattern which is available by anonymous ftp from (among
other places) ra.nrl.navy.mil in the MacSciTech/biology directory.
Kudos to the authors and the ftp sites.
Best of luck,
danj at welchgate.welch.jhu.edu
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