Based on the on-site observation of the topography, a generalized three-dimensional physical model of coral reef-lagoon-channel system was established in the wave basin. Wave gauges, velocity meters, and surface velocity measurement system were used to analyze wave and current field characteristics at different locations under regular wave condition. The experimental results indicate that over the reef flat, the wave height gradually decreases by 86.7% cross-shore, and wave-induced setup first increases and then decreases by 65.9% along the reef. The mean current direction is mainly cross-shore, and there is a tendency of increasing first and then decreasing. In the lagoon, the wave height is larger near the channel, where wave-induced setup is the smallest. The maximum wave height is about 2.8 times of the minimum value, and the wave-induced setup is 25.5% lower than on both sides. The mean current is mainly a longshore one that points symmetrically to the rip channel. The velocity increases from the two sides to the rip channel first and then decreases. The wave height in the channel does not change much, and largest wave-induced setup is 47.6% than that on the reef. The mean current flows offshore, and increases first and then decreases. Using the results measured by the wave gauges, the spatial changes of the radiative stress and wave surface pressure gradient which drove the circulation were quantitatively analyzed. The current change on the reefs is the result of the interaction between wave surface pressure gradient and the radiant stress. The driving force of the offshore flow in the rip channel is mainly the radiant stress, while the change of the longshore current in the lagoon is determined by the pressure gradient of the mean water level.