Protein-imprinted soft-gel composite microspheres with magnetic susceptibility (MS-PIGMs) were prepared by inverse suspension polymerization using Fe 3 O 4 particles as magnetically susceptible component and bovine serum albumin and lysozyme (Lyz) as templates, respectively. The average content of magnetically susceptible component (Fe 3 O 4 ) inside MS-PIGMs was determined using thermogravimetric analyzer, and the magnetic characteristics of MS-PIGMs were measured by vibrating sample magnetometer. The results showed that the resulting MS-PIGMs had a certain magnetic response to external magnetic fields, and their average content of Fe 3 O 4 was 2.08%. Their recognition specificity was investigated using BSA and Lyz as both templates and control molecules and characterized by high-performance liquid chromatography, and the mechanism of imprinting and recognition was analyzed. It was shown that the resulting BSA imprinted soft-gel composite microspheres with magnetic susceptibility (BSA-PIGMs) and Lyz imprinted soft-gel composite microspheres with magnetic susceptibility (Lyz-PIGMs). All exhibited good recognition selectivity for their templates, and the relative separation factor () was 4.75 and 5.88, respectively. The recognition selectivity of MS-PIGMs to their templates depended mainly on the synergic action of a large quantity of hydrogen binding being caused by complementation and very close contact of outer surface of proteins with inner surface of "imprinting cavities."