Taking Fengtai district as a study object on basis of analyzing water supply and demand, the paper constructed a bi-level optimization model so as to embody the strict control of pollutant emissions from an environmental point of view,and the maximal economic benefit of water resources system from an economic point of view.Finally the unity of quantity and quality of water resources and coordinative allocation of water resources among multi sectors have been achieved. Also, the integrated targets of economy and environment have been realized. The results show that water supply of each planning year in Fengtai district basically can meet the requirement every consumer.The south-to-north water transfer project can play a significant role in the regional allocation system of water resources.It further compared and analyzed the result between bi-level plan model and the two conventional single-objective models so as to provide decision scheme in different scenirous for different makers.