Finding Repeat Patterns in Proteins

vmmorozov at my-deja.com vmmorozov at my-deja.com
Mon Mar 20 17:41:54 EST 2000



In article <38D61BCB.16C90253 at hotmail.com>,
Fred <dynamin at hotmail.com> wrote:
> Can anyone suggest a web site (or a PC program) that finds repeat
> patterns within a single protein (eg 2 or more similar domains or
> repeated short motifs of say 20 amino acids). A number of Protein
sites
> that claim to be good start sites all suggest "Repro", which
apparently
> has not been up for years (at least, I have never seen it working).

Try this site http://mathbio.nimr.mrc.ac.uk/~rgeorge/repro/

MEME can detect repeat in single sequence unless the Web version
compiled for >= 2 inout sequences
http://www.sdsc.edu/MEME/meme/website/

SAPS can detect not very divergent repeats
http://www2.ebi.ac.uk/SAPS/




The
> best I have found so far is SIM - Alignment Tool for protein sequences
> at <http://www.expasy.ch/tools/sim-prot.html>, but this is a bit
limited
> (it is designed for comparison of 2 proteins rather than 1, although
it
> does work on 1).
>
> Thanks
> Phil Robinson, Sydney
>


Sent via Deja.com http://www.deja.com/
Before you buy.




More information about the Proteins mailing list