Abstract: Knowledge of the recharge from surface water to groundwater is the basement of the scientific understanding of water cycle and the sustainable management of groundwater resources. Meanwhile, the layered heterogeneity is the main structural feature of riverbed sediments (i.e., the lithologic difference between riverbed sediments and the underlying aquifer) and the main factor that controlling the recharge from surface water to groundwater. To reveal the influence mechanism of layered structure of pore media on the recharge from surface water to groundwater, a conceptual model of surface water and groundwater interaction is established based on the field test results of Henan reaches of the Yellow River, and the process of the recharge from surface water to groundwater interaction is described using flow path as the object. The results show that the exchange flux of surface water and groundwater is mainly affected by hydraulic conductivity of riverbed sediments, and the change of the thickness of riverbed sediments has little effect on the exchange flux between surface water and groundwater. That is, the increase of the ratio of the thickness of the sediments to that of the underlying aquifer (H_S/H) from 0 to 0.125 leads to the interaction flux decreased by 72%, indicating that the existence of the low permeability layer is the main reason that decreases the interaction flux between surface water and groundwater. The change of the permeability and the thickness of riverbed sediments has obviously changed the flow path from surface water to groundwater and the travel time. Specifically, the increase in K_U/K_L leads to a lager penetration depth of groundwater flow and lager travel times. The sensitivity of exchange flux between surface water and groundwater and groundwater travel time to the hydraulic conductivity of riverbed sediments increases with the decreasing hydraulic conductivity. At the same time, the groundwater travel time is more sensitive to the change of the thickness of the low permeability riverbed sediments, and the sensitivity increases with the increasing thickness. The research results can provide reference for groundwater resource management and sustainable development.