Hydroelastic deformation of pontoon type floating structure in waves is critical in structural design. Therefore, it is necessary to develop additional technology that make to dissipate the wave energy as the submerged horizontal plate. In this study, we investigate the characteristics of hydrodynamic interaction effect by the submerged plate affecting to the radiation forces on a pontoon type floating structure using numerical analysis. We have developed the numerical method based on the composite grid system that consists of moving and fixed grid to compute the radiation forces due to the heaving motion of pontoon type floating structure and submerged plate. The numerical simulations based on the finite difference method are carried out to solve the fully nonlinear free surface involving the breaking waves and compared with the experimental data to confirm the reliability of the numerical method. Then, we discuss the interaction effects on the hydrodynamic forces that could influence on the hydroelastic response of floating structure.