In the present study, via using the mixed-ligand synthesis approach, a new Mn(II)-containing coordination polymer (CP) with the chemical formula of {[Mn3(timb)2(SO3–IPA)2(H2O)2]·8H2O} n (1) has been successfully prepared via reaction of MnCl2·4H2O with the tripodal linker 1,3,5-tris(2-methylimidazole-1-yl)benzene (timb) and aromatic dicarboxylic acid ligand –SO3 group functionalized isophthalic acid (H2IPA) ligand. Furthermore, the biological activity of the new compound on renal calculus was assessed, and the related mechanism was explored as well. The Calcium Colorimetric Assay was conducted and the concentration of Ca2+ in urine was determined. The western blotting assay was conducted and the expression levels of the osteopontin (OPN) in the distal tubule were measured. Molecular docking simulation revealed that the carboxyl, iminazole, and sulfonate groups were all involving into the binding interactions with the target protein, and therefore exhibited strong biological activity.