The safety of drinking water is concerning the life and health of people and should be paid much attention. Assessment of environment health risk of drinking water is an important method to link pollutant and human health. This paper established a water environmental health risk assessment model on the basis of achievements in health risk assessment research at home and abroad, which directly put single indicator to human health and defines the priority of controlled pollutants. Through assessment of environmental health risk in drinking water protected zone of Emei river ,the paper analyzed the problem of water environmental health risk and got quantitatively the index of health risk witch can provide important basis for risk management and decision-making of drinking water protected zone. The assessment result of health risk can scientifically and rationally guide the work of management of drinking water protected zone.