Cage-based metal–organic frameworks (MOFs) have large pore spaces but small pore windows, endowing them with unique potential in the fields of gas adsorption, separation, and so on. Here, we successfully synthesized a series of isostructural caged-based MOFs with different counteranions, i.e., {[Cu3(TPA)4(BF4)6]n·(solvent)x} (Cu-TPA–BF4), {[Cu3(TPA)4(ClO4)6]n·(solvent)x} (Cu-TPA-ClO4), and {[Cu3(TPA)4(NO3)6]n·(solvent)x} (Cu-TPA-NO3), which are formed by the coordination of tridentate nitrogen-containing ligands tri(pyridin-4-yl)amine (TPA) and copper(II) cations. Nevertheless, after placing Cu-TPA–BF4 in a glass tube for a long period, a more stable violet crystal {[Cu3(TPA)4(SiF6)3]n·(solvent)x} (Cu-TPA-SiF6) is generated, while no transformation is observed for Cu-TPA-ClO4 and Cu-TPA-NO3. Cu-TPA–BF4 belongs to a tbo topology and possesses octahedral cages and two kinds of cuboctahedral cages, with the uncoordinated BF4– anions filling in the channels. In comparison, as a two-connected node, SiF62– anions participate in the construction of the tetrahedral cages and icosahedral cages, resulting in conversion to Cu-TPA-SiF6 with an ith-d topology. Further investigation indicates that the hydrolysis of BF4– anions and further reaction with SiO2 will afford SiF62– anions, which can be directly involved in the formation of Cu-TPA-SiF6 to induce the transformation. Additionally, the stability and adsorption behaviors of Cu-TPA–BF4 and Cu-TPA-SiF6 are also investigated.
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