Landscape structure, habitat types, vegetation structure and biodiversity in the Bokha stream chosen as a reference stream were investigated to get ecological information necessary for restoration of urban stream degraded by excessive artificial interference. Landscape structure showed a slight change between before and after flooding. Habitat types of nine sorts were identified based on ecological information obtained from field survey such as micro-topography, hydrological characteristics, disturbance regime, and so on. Each habitat holds specific organisms to each site. Consequently, the number of plant communities, and species of benthos and fish increased as the kinds of habitat type increase. Ordination of habitat types based on vegetation, benthos, and fish data reorganized them into three groups of pool types of two kinds depending on whether they are connected to the water course or not and riffle one. Vegetation showed different stratification and species composition depending on topographical position in relation to disturbance cycle. Based on the results from this study, relationship between environmental heterogeneity and biodiversity was discussed and a restoration plan was suggested in a viewpoint of vegetation.