In this paper, we describe implementation and test result for a LonWorks based control system in which air conditioner is handled by LonWorks node. The LonWorks based control system for handling air conditioner remotely is integration of control nodes because LonWorks is a communication protocol which is adopted as a standard protocol in building automation systems. For the remote management of distributed control system using Lonworks, we develop protocol converter based on SoC, where there is a Neuron Chip and Embedded Linux is running. The experiment result show that protocol converter using Embedded Linux is a flexible and effective way to build a distributed control system. And the LonWorks based control system for air conditioner is useful way to give interoperability.