A turbocharged diesel engine numerical model, suitable for real-time ship manoeuvre simulation, is presented in this paper. While some engine components (mainly the turbocharger, intercooler and manifolds) are modelled by a filling and emptying approach, the cylinder simulation is based on a set of five-dimensional numerical matrices (each matrix is generated by means of a more traditional thermodynamic model based on in-cylinder actual cycle). The new cylinder calculation approach strongly reduces the engine transient computation time, making it possible to transform the simulation model into a real-time executable application. As a case study, the simulation methodology is applied to a high speed four stroke turbocharged marine diesel engine, whose design and off design running data are available from the technical sheet. In order to verify the suitability of the proposed model in real-time simulation applications, a yacht propulsion plant simulator is developed. Numerical results in ship acceleration and deceleration manoeuvres are shown, reducing the simulation running time of 99% in comparison with the corresponding in-cylinder actual cycle engine model.