Abstract: A system and method for protection of Web based applications are described. An agent is included in a web server such that traffic is routed through the agent. A security module is also in communication with the agent. The agent receives information about the application profile, and patterns of acceptable traffic behavior, from the security module. The agent acts as a gatekeeper, holding up suspicious traffic that does not match the pattern of acceptable traffic behavior until the suspicious traffic has been analyzed by the security module. Using the agent, malicious traffic can dropped before it can reach the application, or the user can be logged out, or both.