Is it possible to predict protein domains?
aiyar at ebv.oncology.wisc.edu
Wed Sep 25 17:21:19 EST 1996
On 25 Sep 1996 15:39:18 GMT, Cornelius Krasel <krasel at wpxx02.toxi.uni-wuerzburg.de> wrote:
>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?
I am not sure if the specific approach that you suggest has been
tried, but Patrick Argos had published an excellent paper in
JMB a few years ago on this subject.
The reference is:
J. Mol. Biol. 211: 943-958 (1990). An investigation of oligopeptides
linking domains in protein tertiary structures and possible candidates
for general gene fusion.
I hope this helps you a little ....
Ashok Aiyar, Ph.D.
Department of Oncology email: aiyar at ebv.oncology.wisc.edu
University of Wisconsin-Madison tel: (608) 262-6697
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