Prime Minister's Office and Cabinet
Cabinet secretariat
      Cabinet Legislation Bureau
      National Personnel Authority
      Cabinet Office, Government of Japan
            The Imperial Household Agency
            Japan Fair Trade Commission
            National Public Safety Commission
                  National Police Agency
            Financial Services Agency
            Consumer Affairs Agency, Government of Japan

Ministry of Internal Affairs and Communications (MIC)
      Environmental Dispute Coordination Commission
      Fire and Disaster management Agency
      Statistics Bureau
      MIC's portal site for information and communications policies
      Incorporated administrative agencies
      National Institute of Information and Communications Technology

Ministry of Justice

Ministry of Foreign Affairs

Ministry of Finance
      National Tax Agency

Ministry of Education, Culture, Sports, Science and Technology（MEXT)
      Agency for Cultural Affairs
            Incorporated administrative agencies
            Japan Aerospace Exploration Agency
            Japan Agency for Marine-Earth Science and Technology
            Japan Atomic Energy Agency
            Japan Science and Technology Agency
            Japan Society for the Promotion of Science
            National Institute for Materials Science
            Riken
            Inter-University Research Institute Corporation
            High Energy Accelerator Research Organization
            National Institutes of Natural Sciences
            Research Organization of Information and Systems

Ministry of Health, Labour and Welfare
      Social Insurance Agency

Ministry of Agriculture, Forestry and Fisheries
      Forestry Agency
      Fisheries Agency

Ministry of Economy, Trade and Industry (METI)
      Agency for Natural resources and Energy
      Japan Patent Office
      Small and Medium Enterprise Agency
            Incorporated administrative agencies
            Information-Technology Promotion Agency (IPA)
            Japan Atomic Energy Agency (JAEA)
            Japan External Trade Organization (JETRO)

            Japan International Cooperation Agency (JICA)
            Japan Nuclear Energy Safety Organization (JNES)
            Japan Oil, Gas and Metals National Corporation (JOGMEC)

            Japan Water Agency
            National Institute of Advanced Industrial Science and Technology (AIST)
            National Institute of Technology and Evaluation (NITE)
            New Energy and Industrial Technology Development Organization (NEDO)
            Organization for Small & Medium Enterprises and Regional Innovation Japan
            Research Institute of Economy, Trade and Industry (RIETI)

Ministry of Land, Infrastructure, Transport and Tourism (MLIT)
      Japan Tourism Agency
      Japan Meteorological Agency (JMA)
      Japan Transport Safety Board
      Japan Coast Guard

Ministry of the Environment

Ministry of Defence