There are four Departments within the structure of the Centre:
- Department of Zoology – Custodian: dr Rafał Garlacz
- Department of Geology – Custodian: dr Bartłomiej Kajdas
- Department of Anthropology
- Department of Paleobotany – Custodian dr Sławomir Florjan
According to the Rules of the Nature Education Centre, the individual departments are tasked with:
- taking care of the scientific and educational collections and their acquisition;
- promoting scientific research and the educational process, using the collections deposited at the Centre;
- developing permanent and temporary exhibitions related to natural sciences for educational purposes.