Abstract:The objective of this study is to determine the amino acid sequence of antibacterial peptide function units from Lacticacid bacteria fermented liquid, it has important significance for deep understanding of the antibacterial principle and practical application.According to the AssayMAP Bravo protein purification system, the experiment used the RPHPLC-MS method, got three components of high purity and high antibacterial activity from the 3.5 KDa small antibacterial peptide samples by using Gel-Filtration Chromatography, two-steps Reversed-Phase High Performance Liquid Chromatography and two-dimensional Mass Spectrometry. The amino acid sequence of three antibacterial peptide function units had been measured, respectively were Phe-Tyr-Pro-Ser-Tyr-Ala, Asn-Glu-Arg-His and Lys-Glu-Ile-Thr-Pro-Ser-Glu-Arg. The experimental conclusion is that the antibacterial function units of small peptide consists of three short peptides, using this method can effectively extract and detection of the small antibacterial peptide, and the amino acid composition of 3.5 KDa small antibacterial peptide is different from Nisin.