In this study, to evaluate the collision behaviors of the navigating vessel and the dolphin protective system protecting the substructures of bridges, the numerical simulation was performed. The analysis model of vessel bow that the plastic deformations are concentrated was composed by shell elements, and the main body of vessel was modeled by beam elements to represent the mass distribution and the change of potential energy. The material model reflecting the confining condition was used for the modeling of the filling soil of dolphin system. The surrounding soil of the dolphin system was modeled as nonlinear springs. As results, it is verified that the dolphin system can adequately dissipate the kinematic energy of the collision vessel. The surrounding soil of the dolphin system is able to resist the collision force of the vessel. And the major energy dissipation mechanism of collision energy is the plastic deformation of the vessel bow and the dolphin system.