High-pier railway bridges are mostly applied in mountainous areas. Due to the large spatial flexibility of the high piers under train dynamic loads, especially under braking conditions, the wheel-rail (WR) dynamic interaction may become more intense in the longitudinal direction, which could induce larger deformation and impact on the train-track-bridge (TTB) coupled system. To investigate the dynamic characteristics of such complex and large system during train braking condition, a 3D train-slab track-high pier bridge (TTHPB) coupled dynamics model is established and verified by considering the system longitudinal vibrations and the spatial flexibility of high piers. In this work, the influence of concerned bridge height from 60 to 160 m on the dynamic performances of the TTHPB system under train braking condition is studied. Results indicate that the operation speed has a significant effect on carbody acceleration and WR force. The longitudinal carbody acceleration due to its high-frequency vibration, as well as its noticeable amplitude induced by the long-time frequent braking, should be carefully considered in the evaluation of riding comfort index. The longitudinal dynamic behaviour of the high pier bridge is considerable and should be paid full attention to in bridge design compared with the other two directions.