A two-dimensional peptide gel electrophoresis system for phosphopeptide mapping and amino acid sequencing

A novel two-dimensional electrophoresis system to be carried out on polyacrylamide gels under nondenaturing conditions was developed to efficiently fractionate the peptides resulting from endoproteinase digestion of P-32-labeled proteins. In particular, nondenaturing gel isoelectric focusing was combined with alkaline 40% polyacrylamide gel electrophoresis to generate phosphopeptide maps with high reproducibility, thus allowing both protein fingerprinting and comparative analysis of different samples. The potential application of this method for subsequent amino acid sequencing of the isolated phosphopeptides was further demonstrated by successful manual and automated Edman sequencing. Taken together these data show that such a simple and precise approach is suitable for both analytical and preparative aims. (C) 1999 Academic Press.