The invention provides a dynamic design method of a whole structure of a high-speed machining machine tool considering the rigidity of a joint part, which comprises the following steps: step 1, performing a three-dimensional digital modeling of the high-speed machining machine tool; 2, calculating that dynamic parameters of the plane joint part of the machine tool; 3, calculating that dynamic parameters of the joint part of the machine tool guide rail; 4, analyzing and calculating that dynamic characteristic of the whole machine structure of the high-speed machining machine tool; 5, dynamic designing that whole machine structure of the high-speed machine tool. By adopting the dynamic design method of the high-speed machining machine tool considering the rigidity of the joint part providedby the invention, the dynamic modeling and the dynamic design accuracy of the high-speed machining machine tool structure can be greatly improved, and the design period can be shortened. It is not only convenient for the forward design of high-speed machining machine, but also improves the success rate of one-time design.