In order to research retrofitting measures of ancient building with gate tower, an investigation was carried out to Shangqing Temple, a stone-wood structure on the Qingcheng Mountain. Taking into account the nonlinear boundary, the mixed-scale finite element method was adopted to respectively set up the single gate tower numerical model and another considering the cooperation of base and memorial archway. Compared with the national code, the behavior of single gate tower numerical model was analyzed to prove the validity of the numerical model. The deformation, seismic base shear and internal force of its members were investigated by the transient dynamic analysis. The measures of reinforcing the base and stone memorial archway with bolts and anchoring the mortise-tenon joint of tower gate with claw nail were proposed. The results indicated that because the dynamical participated mass of gate tower is centralized, large seismic response will happen when the gate tower was excited. The action of base results in the marked whiplash effect, but the mass of tower gate is small and the amplitude of seismic internal force is much less than the one of displacement. The gate tower has a good ductility to improve its collapse resistant capacity, and retrofitting measures of ancient building should take into account the protection and inheritance of the mechanical behavior of mortise-tenon joint.