Is it possible to predict protein domains?
lluis at aars.mit.edu
Thu Sep 26 10:03:36 EST 1996
Cornelius Krasel (krasel at wpxx02.toxi.uni-wuerzburg.de) wrote:
: Hello folks,
: I wonder whether it might be possible to predict the domain structure
: of a protein without having to resort to sequence comparison. Are there
: preferred amino acids in the linkers between domains, or amino acids
: which are generally avoided?
: Something like this would definitely be useful for approaching several
: problems -- has anybody ever tried it?
You are describing fold recognition. It has been tried, it has
been used, it has been suffered :-).
For more information check the CAME homepage in Austria, or the
EMBL homepage in Heidelberg, or look at the list in Pedro's
homepage for other methods (threading, Hidden MArkov, etc.).
Does it work ?. Hell, yes!...sometimes.
Dept. of Biology
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