Herein a novel inorganic-organic hybrid Keggin-type heteropolymolybdate [Ni2Na(C12H8N2)4(BMo12O40)(H2O)2] (1) has been synthesized under hydrothermal conditions in aqueous solution. The cyrstal structure was fully characterized by powder X-ray diffraction (XRD), elemental analysis, Fourier-tranform infrared spectrum (FT-IR), Thermogravimetric analysis (TGA) and Scanning Electron Microscopy (SEM) analysis. Single crystal X-ray structural analysis demonstrates that the complex consists of a Keggin anion [BMo12O40] 5− polyanion, four 1,10-phenanthroline (C12H8N2) ligands, two Ni(II) ions, two Na(I) ions and two aqua ligands. The experimental powder X-ray diffraction (XRD) result of the crystal is consistent with the calculated data. The SEM image shows that the compound crystals have a cubic structure.