The hydrothermal reaction of (NH4)3[CoMo6O24H6]·7H2O (CoMo6), CuCl2·2H2O and 2,2′‐biimidazole (H2biim) led to the formation of a new coordination polymer, namely poly[diaquabis(2,2′‐biimidazole)hexa‐μ3‐oxo‐octa‐μ2‐oxo‐hexaoxodicopper(II)hexamolybdate(VI)], [Cu2Mo6O20(C6H6N4)2(H2O)2]n (Cu‐Mo6O20), at pH 2–3. It is obvious that in the formation of crystalline Cu‐Mo6O20, the original Anderson‐type skeleton of heteropolymolybdate CoMo6 was broken and the new isopolyhexamolybdate Mo6O20 unit was assembled. In Cu‐Mo6O20, one Mo6O20 unit connects four [Cu(H2biim)(H2O)]2+ ions in a pentacoordinate mode via four terminal O atoms, resulting in a tetra‐supported structure, and each CuII ion is shared by two adjacent Mo6O20 units. Infinite one‐dimensional chains are established by linkage between two adjacent Mo6O20 units and two CuII ions, and these chains are further packed into a three‐dimensional framework by hydrogen bonds, π–π interactions and electrostatic attractions. The catalytic performance of this crystalline material used as an efficient and reusable heterogeneous acid catalyst for carbonyl‐group protection is discussed. In addition, Cu‐Mo6O20 was applied as a new support for enzyme (horseradish peroxidase, HRP) immobilization, forming immobilized enzyme HRP/Cu‐Mo6O20. HRP/Cu‐Mo6O20 showed good catalytic activity and could be reused.