This paper proposes substructuring method using experimental model of only upper MDOF structure and verifies its applicability to shaking table test. The structure considered in the test is a five-stoty shear type building model which is divided into two parts, of which one is lower three floors for a numerical substructure and the other is upper two floors for a experinlental substructure. The experimental substructure is excited by the shaking table and the acceleration data for the input of shaking table is obtained numerically from lower numerical part. For implementation of the proposed substructuring method, a controller of the shaking table is designed reflecting experimental model. In comparison with acceleration responses, which are measured from experinlental part of 3rd, 4th, and 5th floor and are numerically calculated from the original five-stoty structure, it is observed that the experimental results match well with the numerical results in both time and frequency domain.