Improved peptide mapping using phytic acid as ion-pairing buffer additive in capillary electrophoresis

By digestion of the highly basic polypeptide aprotinin or bovine pancreatic trypsin inhibitor (BPTI) with endoproteinase Lys-C after unfolding, reduction and pyridylethylation, five fragments are obtained. These fragments are separated by free solution capillary electrophoresis using a phosphate buffer at neutral pH. The effect of the ion-pairing buffer additive phytic acid on the separation was investigated. It is shown that phytic acid through ion-pair formation influences the mobility of only those peptide fragments having a net positive charge at the pH of the separation buffer. The affinity of phytic acid to the peptides correlates with their isoelectric point and the charge to mass ratios. Hence, by changing the concentration of phytic acid, it is possible to manipulate the migration order and the separation of the peptides.