A partially coupled effective stress analysis is assessed in predicting the seismic performance of a caisson-type quay wall. Using a nonlinear finite difference program, a numerical study of shaking table tests, carried out at Tokyo University, is performed. In this paper, the formulation of an employed computational code is described, and the results of numerical simulation are compared with the measured records. The results demonstrate that the trend and magnitude of vertical and horizontal displacements of quay wall appear to be predicted reasonably well. The overall tendency is to overpredict the horizontal movement, but the vertical movement is underpredicted.