A method and an apparatus for providing a service to a Mobile Station (MS) by a plurality of Base Stations (BSs) operating in cooperation in a wireless communication system are provided. The method includes configuring, by a master BS, a first cooperative cell including at least one slave BS, sending a resource request message for requesting resource allocation to the at least one slave BS included in the first cooperative cell, receiving, from each of the at least one slave BS, a resource request response message including resource approval control results for the resource allocation request, changing member BSs constituting the first cooperative cell based on the resource request response message, and allocating resources to an MS that is served in the first cooperative cell.