This paper describes a development of the operational architecture of a low altitude air defense automation system using a systems engineering approach. The future battlefield is changing to new system of systems that command and control by the network based BM/C4I. Also, it is composed of various sensors and shooters in an single theater. Future threats may be characterized as unmanned mewing bodies that the strategic effect is great such as UAVs, cruise missiles or tactical ballistic missiles. New threats such as low altitude stealth cruise missiles may also appear. The implementation of a low altitude air defense against these future threats is required to complex and integrated approach based on systems engineering. In this view, this work established an operational scenario and derived operational requirements by identifying mission and future operational environments. It is presented the operational architecture of the low altitude air defense automation system by using the CORE 5.0.