The existing research for unsteady flow field and the corresponding flow induced vibration analysis of centrifugal pump are mainly carried out respectively without considering the interaction between fluid and structure. The ignorance of fluid structure interaction (FSI) means that the energy transfer between fluid and structure is neglected. To some extent, the accuracy and reliability of unsteady flow and rotor deflection analysis should be affected by this interaction mechanism. In this paper, a combined calculation between two executables for turbulent flow and vibrating structure was established using two-way coupling method to study the effect of FSI. Pressure distributions, radial forces, rotor deflection and equivalent stress are analyzed. The results show that the FSI effect to pressure distribution in flow field is complex. The pressure distribution is affected not only around impeller outlet where different variation trends of pressure values with and without FSI appear according to different relative positions between blade and cutwater, but also in the diffusion section of volute. Variation trends of peak values of radial force amplitude calculated with and without FSI are nearly same under high flow rate and designed conditions while the peak value with FSI is slightly smaller, and differently, the peak value with FSI is larger with low flow rate. In addition, the effect of FSI on the angle of radial force is quite complex, especially under 0.5Q condition. Fluctuation of radial deflection of the rotor has obvious four periods, of which the extent is relatively small under design condition and is relatively large under off-design condition. Finally, fluctuations of equivalent stress with time are obvious under different conditions, and stress value is small. The proposed research establishes the FSI calculation method for centrifugal pump analysis, and ensures the existing affect by fluid structure interaction.