In the paper a novel mathematical model of electromechanical actuator is presented. It is based on application of Hamiltonian equations in the description of electro-mechanical energy conversion. It results in employment of flux linkages as state variables in the state space equations. For simplicity only a 3-phase wye connected stator winding without a neutral wire is considered in detail. The procedure can be generalised to any number of phases. Topology-based approach is used in the model implementation. Procedures for evaluation of all quantities (currents, energy/coenergy, electro-magnetic torque) present in model equations are described. Eddy currents and hysteresis phenolmenon are neglected in formulation of the model to enable application of state-space description.