The demands on machining accuracy have been increasing lately and therefore research of thermal behaviour of machine tool structures is crucial for successful manufacturing. Generated heat diffuses into the structure of the machine tool components. This process is affected by heat sinks such as heat transfer on the surfaces and cooling systems. Meanwhile the heat warms up the structure of the machine tool and thermal dilatation deforms it. This deformation subsequently affects machining accuracy in a negative way. Different systems are used to eliminate the thermal error, but their efficiency depends on the quality of the thermal machine tool model. This article brings up new approach in the thermal modelling, which combines thermal transfer function modelling and Matlab® tools such as Matlab system identification toolbox® and Matlab® Simulink®.