Structure dynamical model updating and validation for bearing-rotor system at working speed considering model-form error is presented. The theory of model-form error, model updating based on complex eigenvalue sensitivity analysis is successfully accomplished in this piece of work. The updating for simulation example about flexible rotor-bearing system at working speed, considering model-form error, is performed to bearing stiffness, bearing damping and diameter moment of inertia parameters using wheel frequency and damping as objective residues. The updated model is validated through unbalance response prediction. The simulation results show that the maximum residual errors of updated parameter is still －10.1%, but the maximum residual errors for the real part of updated eigenvalue is 0.95% and for the imaginary part is -1.15% even taking into 2% model-form error account in model updating. The unbalance response prediction of the updated model matches the target model unbalance response quite well. The results, in no doubt, proved the effectiveness and robustness of the model updating method considering model-form error using wheel frequency and damping for bearing-rotor system at working speed.