The modelling of the transport complex is made using an automated system and an example of the enterprise that uses the dangerous materials. The example of such enterprise is a nuclear power station. The automated system used for modelling is a web-based intranet application that realizes monitoring and control functions. The automated system uses a system of objects included into the model of the enterprise, namely: gates, roads, transportation devices and controllers, airtight zone, describing the reactor building, gateway which allows to move cargo into and out from the building, non-airtight zone, which describes the outside area, and the zone of loading and unloading the cargo. The system receives input signals of discrete or analogue origin. Basing on the results of data collection, the algorithms of forecasting the crucial changes in states of main elements of the transport complex were developed. The automated system models the workflow of elements and the whole transport complex.