Bridge structures are vulnerable to severe damage in previous earthquake events. Meanwhile, the earthquake-induced site liquefaction can significantly affect the seismic performance of bridge structures. Seismic fragility analysis is considered as an effective approach for evaluating seismic performance of bridge structural systems exposed to seismic hazards. This study aims to assess seismic fragility of a ground-bridge structure system considering site liquefaction. Based on the probabilistic seismic demand model (PSDM) and joint probabilistic seismic demand model (JPSDM), a holistic framework for fragility analysis considering site liquefaction is proposed to derive the liquefaction fragility as well as the structural system fragility. The system fragility surfaces obtained by the proposed method can reflect the influence of site properties on the damage exceeding probability of bridge structures. The results demonstrate an increasing probability of undergoing high-level damage states for the whole system containing highly loose sand under strong earthquakes, which may provide significant basis for probabilistic-based aseismic design.