An apparatus and a method for controlling a small base station using a macro base station may reduce interference between the small base station and the macro base station. The method includes determining whether a small base station is in a blank state; transmitting a deactivation request message to the macro base station if the small base station is in the blank state; and operating the small base station in an inactive mode if a deactivation response message is received from the macro base station. The inactive mode being a mode of the small base station in which a synchronization channel or a minimal channel is transmitted to enable a terminal in the cell area of the small base station to identify the small base station.