MACRIDES@wfeb2.bitnet (Foteos Macrides) (06/14/91)
Archive-name: bionet/molbio/prosearch/1991-06-14 Archive: menudo.uh.edu:/pub/genbank-server/unix/prosearch* [129.7.1.6] Original-posting-by: MACRIDES@wfeb2.bitnet (Foteos Macrides) Original-subject: Re: PROSITE search program Reposted-by: emv@msen.com (Edward Vielmetti, MSEN) >> Hello everybody, >> I have heard of a program for searching UWGCG-files with >> the PROSITE database of A. Bairoch. >I haven't heard of this particular program, but should mention that the EMBL >netserver has several programs available which facilitate the use of PROSITE >motifs with the GCG package. (Some of these may also operate on files in GCG >format independently, but I'm not sure of the specifics. In case anyone is >lacking it, the address of the netserver is Netserv@EMBL-Heidelberg.de. > >BTW, v 7 of the GCG package includes a program called Motifs, which searches >for PROSITE motifs in sequences. It's fairly intuitive, and produces useful >output. I'd recommend using the /Ref qualifier (which prints out brief >descriptions of all motifs for which hits are found) if you're not already >familiar with PROSITE. We got the p/d program earlier this year via Email from gene-server@bchs.uh.edu (SEND VMS PROSEARCH12.DCLSHAR). It requires GAWK (Free Software Foundation). We got the VMS port of GAWK by FTP from RML2.SRI.COM (128.18.22.20). It also requires READSEQ (I think that's on NETSERV@EMBL, but we got it from iubio.bio.indiana.edu 129.79.1.101. Frankly to my surprise, when we put all these assorted things together the program worked perfectly. We recently installed GCG V7. MOTIFS is VERY nice. Fote ========================================================================= Foteos Macrides Worcester Foundation for Experimental Biology MACRIDES@WFEB2.BITNET 222 Maple Avenue, Shrewsbury, MA 01545 ========================================================================= -- comp.archives file verification menudo.uh.edu -rw-r--r-- 1 504 352 214072 Feb 17 21:43 /pub/genbank-server/unix/prosearch_1.2.shar -rw-r--r-- 1 504 352 294983 Feb 17 21:43 /pub/genbank-server/unix/prosearch_1.2.uue found prosearch ok menudo.uh.edu:/pub/genbank-server/unix/prosearch*