Cytoplasmic male sterility (CMS) is the maternally inherited inability to produce functional pollen in a range of crop plants and has been widely used for the production of hybrid seed in plant breeding .To better under- stand the molecular mechanism on protein level and find the crucial proteins which related to fertillity, total anther proteins extracted from uninucleate and binucleate stage of (S)-1376A and (A)-1376B were separated by two- dimensional electrophoresis, the coomassie brilliant blue stained protein spots were analyzed using PDQuest software, among 610 reproducibly protein spots could be visualized on each 2D-gel within M 9.0～100.0 ku and pI 4～7. A total of 28 differentially expressed proteins were identified by matrix-assisted laser desorption ionization time of flight mass spectrometry(MALDI-TOF-MS), 5 of them were identified following NCBInr database queries, which are ubiqutin-protein ligase E2, putative glycine-rich protein, ascorbate peroxidase, putative cysteine proteinase inhibitor, ribulose bisphosphate carboxylase small chain clone 512. These proteins were involved in the process of energy metabolism, programmed cell death (PCD), regulating flower development.These results provide a clue for elucidating the mechanism of CMS.