With the development of the Chinese economy and society, the height and density of urban buildings are increasing, and large underground transportation hubs have been constructed in many places to alleviate the pressure of transportation. Commercial buildings are usually developed above the large underground transportation hubs, so the underground structures may have very shallow depths or no soil cover. The seismic response and damage mechanisms of such underground structures still need to be studied. In this paper, an example of a project in China is taken as an object to analyze the seismic response and damage mechanism of the structure after simplification. The spatial distribution of deformations and internal forces of such structures and the location of the maximum internal forces are obtained, and the effect of the frequency of seismic motions on the structural response is obtained. Finally, an elastoplastic analysis of such structures is carried out to assess the damage location and the damage evolution process.