In modelling and process simulation the aim of the research is to create a designed functional control model of student communication in LMS system by a created model in Petri nets. The model reflects the student´s and the pedagogue´s requirements, is enough modular, not too complicated and it fulfils the basic pedagogical and psychological principles. The aim was to create a control model of student communication in LMS system which would be not only intelligible and clear but it would also eliminate some lacks from the other known models. Introduction and administration of any processes requires description of their solution, inspection, monitoring, optimization and first of all their simple formulation, whereby it is very important to express their logic. The article deals with modelling and subsequent simulation of education processes in Petri nets implemented into the environment of the learning management system (LMS). The aim of the LMS system for the teaching control is to regulate the communication according to the student´s knowledge and ability and thus modify the amount and sophistication of submitted materials for the student. Using the constituted model we shall be able to create electronic courses, so these models can serve as a prototype for creating further electronic courses in the environments of the LMS.