I never tried to do anything like this for MALDI,but I did try trypsin
digestion of radiolabelled protein on gels.I did not
care for the excess enzyme,and all the accompanying interference.I found
that the gel may fall apart(whitish ppt.) and
that although there should have been plenty of leftover trypsin,the best
way was to add the enzyme in even two or three
aliquots.In other words with a protein like yours,you may have a lot of
difficulties.
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