Assembled heterostructure systems, as emerging functional materials, have broad applications ranging from enzyme and drug payload to catalysis and purification. However, these require trial‐ and ‐error design process and complex experimental environment to generate heterostructure materials. Here, this study describes an easy‐to‐execute strategy to fabricate magnetic heterostructure as multifunctional delivery system. We utilize first‐row transition metal copper and nitroso/amino ligand as modules to assemble around Fe3O4 magnetic nanoparticles by excessed mild stimuli and fabricate the magnetic heterostructure materials (Fe3O4@ TACN NPs (tetraamminecopper (II) nitrate)). Notably, the Fe3O4@ TACN NPs present with cat's‐whisker structure containing ligand and metal center. The nitroso‐group ligands exhibit strong binding affinity to heme‐structure enzyme, ensuring effective capture and isolate of cytochrome C (Cyt‐c), resulting in their excellent isolation property. The copper complex‐powered magnetic heterostructure materials can effectively isolation Cyt‐c from complex biological sample (pork heart). Importantly, the Fe3O4@ TACN NPs coordinated with heme‐structure, induced methionine 80 (Met80) disassociates from heme prosthetic group, and contributed to peroxidase‐like (POD‐like) activities increasing. These results exhibit that copper complex‐powered magnetic heterostructure materials can not only satisfy the Cyt‐c isolation and immobilization in an alkaline medium, but also be of the potential for improving the immobilization enzyme reactor performance.