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You should be able to solve your problem with the following link: http://us.expasy.org/tools/findpept.html Jürgen Yong Tang wrote: > Dear all, just a super dummy question: I treated a protein with > trypsin, found the protein being degraded into two well-define > fragments, ran a sizing column to find them co-elute, sent the peak > fraction for mass-spec, got the two masses. Now here is the question - > is there any program readily available for me to roughly identify > these two (around 20K) fragments with the full-length sequence and > these two masses, and of cause, with the fact that I use trypsin to > cut it? I checked a lot of programs listed on Expasy to find them > mostly dealing with smaller peptide length. Any information would be > highly appreciated. Thanks and have a nice weekend, -yong > -- Jürgen Bosch University of Washington Dept. of Biochemistry, K-426 1705 NE Pacific Street Seattle, WA 98195 Box 357742 Phone: +1-206-616-4510 FAX: +1-206-685-7002