From owner-biophysics@net.bio.net Fri Apr 15 23:00:00 1994 Path: biosci!agate!howland.reston.ans.net!pipex!bnr.co.uk!bnrgate!nott!uotcsi2!usenet From: misrael@grdb.csi.uottawa.ca (Mark Israel) Newsgroups: bionet.biophysics,bionet.molbio.proteins,bionet.software Subject: Re: protein secondary structure prediction Date: 16 Apr 1994 20:03:27 GMT Organization: Dept. of Computer Science, University of Ottawa Lines: 24 Message-ID: <2opgag$17h@csi0.csi.uottawa.ca> References: <9404150823.ZM1869@model.phr.utexas.edu> NNTP-Posting-Host: grdb.csi.uottawa.ca Xref: biosci bionet.biophysics:189 bionet.molbio.proteins:1771 bionet.software:7934 In article <9404150823.ZM1869@model.phr.utexas.edu>, David G. Rhodes writes: > ((( OK - I admit I should be better informed - I've been busy doing lipid things > for a few years, and have not kept up as well as I probably should have with > certain 'protein things'. ))) > > I need to know the current wisdom as to the best approach to estimating protein > secondary structure from sequence data. The literature is littered > (alliteration) with methods, some of which have doubtless been found, in > retrospect (in practice), to be more effective than others. What I seek is the > input from those who do this on a regular basis as to what works and what > doesn't. Even a pointer to useful (application-oriented) reviews would help. I've cross-posted this to a couple of other newsgroups in the hope that you'll get more of a response. Please let us know what you find out. My guess is that most people are still using the same programs for secondary structure prediction as they were using *before* you got busy with your lipids: the Kabsch and Sander program (e-mail sander@copper.embl-heidelberg.de for info); and the Richards, Kundrot, and Kahn program (e-mail perlo@hhvms8.csb.yale.edu for info). misrael@csi.uottawa.ca Mark Israel .