Using the complex mode method, the giant-sub-control structure system and the ordinary giant frame structure were compared and analyzed under the action of non-stationary earthquakes, and the displacement response of the top layer of the main frame was reduced by 95.70% and the acceleration response was reduced by 24.08%. It proves that this new structural system can effectively control the seismic effect, and significantly improve the safety and comfort of the structure. The influence of shear stiffness of the subframe and the damping of the energy-dissipating damper on the seismic response of the structure was discussed, and the shear stiffness ratio between the subframe and the main frame was greater than 0.15 and avoided 0.4. The first damping ratio between the energy-dissipating damper and the subframe is 1.0~3.0, and the seismic response of the structure can be further controlled, and the reasonable range given plays a guiding role in the structural design.