In order to understand hydrodynamic and morphodynamic characteristics under wave-current interactions in an estuary, a coupled model for two-way analysis between existing 3-d numerical wave tank and newly-developed 3-d morphodynamic model has been suggested. Comparing to existing experimental results it is revealed that computed results of the newly-suggested model are in good agreement with each laboratory test result for wave height distribution, vertical flow profile and topographical change around ocean floor pipeline in wave-current coexisting field. Also the numerical result for suspended sediment concentration is verified in comparison with experimental result in solitary wave field. Finally, it is shown that the 3-D coupled Hydro-Morphodynamic model suggested in this study is applicable to morphological change under wave-current interaction in an estuary.