This thesis gives the overview of concept and constitution of the closed supply chain of green agricultural products on logistics center, and the necessity of regarding logistics center as core enterprises. Meanwhile, it analyzes the function of logistic center of agricultural products, namely functions of exchange, collection, distribution, storage and transportation. It also poses the prerequisites of logistics center. The logistics center of agricultural products must have stable profit expectancy, prominent scale, strong appealing power, capacity of bearing market risk and basic thoughts of supply chain management. The functional design of the closed supply chain of green agricultural products has been discussed in 5 aspects, namely logistics center, production base, provides for means of production, retailer and consumer. The operating thoughts of the closed supply chain of green agricultural products based on logistics center are put forward on the basis of the research of operating objective and service target of supply chain as follows: first, based on local principal agricultural products, the logistics center mainly distributes the massed agricultural products; second, it is necessary to choose appropriate strategic cooperative partners to sign contract; third, the operating procedures of supply chain entails bringing in professional managerial talents of supply chain; finally, the relationships of supply chain should be maintained.