In this study, data linking module called GeoSWMM was developed using a typical secondary flooding model SWMM in order to improve the accuracy of the input data of SWMM and to map hourly inundation estimation areas that were not represented in the conventional inundation map. GeoSWMM is a data linking module of GIS and SWMM, which can generate a SWMM project file directly from sewer network GIS data. Utilizing the GeoSWMM the project file of SWMM model was constructed in the study area, Seocho 2-dong, Seoul. The actual flooding has occurred September 21, 2010 and the actual rainfall data were used for flood simulation. As a result, the outflow started from 2 PM due to the lack of water flow capacity of the sewage system. Based on the results, hourly inundation estimation maps were produced and compared with flood train map in 2010. The comparison showed about 66% matching in the overlap of inundation areas. By utilizing GeoSWMM that was developed in this study, it is easy to build the sewer network data for SWMM. In addition, the creation of hourly inundation estimation map using SWMM will be much help to flood disaster prevention plan.