With the rise of Internet and the impact of its globalization, e-commerce has become the most popular form of trading. The relationship between buyers and sellers is closer, making shopping process more convenient and efficient. Under such a big background, the B2C mode of the Internet e-commerce continues to develop, and forms a combination between sellers and platform. Correspondingly, it is more and more serious hidden danger of network security, which brings a certain degree of loss to individuals and enterprises. In order to eliminate the above unsafe factors and maintain the good development trend of the B2C mode, this paper constructs the Internet e-commerce security management system. According to the corresponding international security standards and modular concept, the Internet e-commerce security management system is formed by the combination of XML bus, security interface and functional modules. Under the framework of JCE, the filtering and verification functions are completed by using IDS algorithm and JAAS technology, and the docking of Internet e-commerce and security agents is maintained by using the dynamic response mechanism of key and response. Furthermore, the simulation results show that the system constructed in this paper can block the existing network attacks and plays a certain role in security management.