Abstract: According to the demand fluctuation brought by market uncertainty, based on the operation mechanism and the control theory of supply chain, a three-leve supply chain model was established, and the PID controller was introduced into the model to implement the coordinated control of the supply chain system. Meanwhile, the model was simulated and analyzed by MATLAB programming, and the results show that by reasonably setting the relevant parameters according to the changes of external environment, the effect of the inventory and bullwhip is reduced and the response speed of the system is improved to the external changes.