The organization is made up of five blocs and they are:

• Christian Council of Nigeria (CCN)
• Catholic Secretariat of Nigeria (CSN)
• Christian Pentecostal Fellowship of Nigeria (CPFN) /Pentecostal Fellowship of Nigeria (PFN)
• Organization of African Instituted Churches (OAIC)
• (TEKAN and ECWA Fellowship)

CAN has Women and Youth Wings, a National Executive Council consisting of 110 members (which elects the President), and a General Assembly of 304 members (which ratifies the President’s election).