>Chris Sanders' group has set up the PredictProtein server; try
>phd at embl-heidelberg.de>with a 'help' in the message.
> R.Doelz Klingelbergstr.70| Tel. x41 61 267 2247 Fax x41 61 267 2078|
> Biocomputing CH 4056 Basel| electronic Mail doelz at ubaclu.unibas.ch|
> Biozentrum der Universitaet Basel|-------------- Switzerland ---------------|
Switzerland:info at ch.embnet.org</a>
This server will do the prediction of the secondary structure (I tried to use
it in the past with a reasonable success which would be greater if the outpu
weas graphical...) but it is not possible to search a database. Sometimes the
server would return another homolog from SwissProt but ONLY if it was really
basically identical. What I am asking for is a search where I get as an output
a list (like in BLAST or even better in FASTA) of possibly related proteins
(from the point of view of secondary structures). In other words, if I have on
my protein three beta-sheets followed by a helix of a given lenght and then a
sheet again, Iw ould like to know what other proteins in database have similar
order/size/distribution of those secondary structures.