Currently, floods are not only occurred in the outskirts of the river course, but also in the urban area, especially in the big city. The main problem of urban flood is the fact that it occurs in highly populated areas. It is a global phenomenon that causes widespread devastation, economic damages and loss of human lives. All the strategies basically are good for long term mitigation but not appropriate for solving the real problems when a disaster happens, because it is static and not real time. To overcome, two main points should be developed: socio-cultural knowledge on floods and flood prevention infrastructure development. Both are correlated to build the settlement of flood problem. Therefore, it is essential to build an integrated system combining Cyber-Physical-Human. The proposed system includes (1) physical layer that consist of sensors rainfall and river water levels and satellite sensors, (2) abstract layer consist of flood modelling (3) interaction with human. Mitigation system based Cyber-Physical-Human will be very useful for agencies related to flood control and as a decision making tool for the government and society at large. Surabaya is chosen as study area.