Fractions of seven protein principles with fibrinolytic or thrombin-like activities obtained from Agkistrodon acutus snake venom purified by two steps of normal pressure chromatography were separated further by capillary zone electrophoresis (CZE). Mass determination for these fractions were achieved by performing laser desorption/ionization mass monitoring (LDIM). The comparative study between CZE and LDIM on the separation of these fractions was made.