The vibration control effectiveness of a hybrid control system that consists of base isolated frame structure with tuned liquid column damper (TLCD) is investigated to avoid and mitigate the damage caused by the large displacement of isolated layer. The motion equations of the single-story and multi-story hybrid control systems under earthquake are established. The equivalent method of transforming the TLCD-main structure into tuned mass damper (TMD)-main structure is adopted. The initial design parameters of a single TLCD are obtained by using the optimization formula of TMD parameters, and the optimal design parameters of multiple TLCDs are obtained by using the state space equation. Numerical results of 8-story base isolated structure show that the theoretical design method is feasible. Moreover, this hybrid structure cannot only reduce the displacement and acceleration of the isolated layer, but also effectively mitigate superstructure response.