This article discusses the experience of developing and implementing a university management information system, as part of the implementation tasks in accordance with the Regulation on the credit system of education in higher professional educational institutions in Republic of Tajikistan, which was approved by Ministry of education and science of Republic Tajikistan from 30.12.2016 г., with number № 19/24. This study presents the general results obtained during the automation of document management (workflow of documents) in university based on a management information system of Khujand Polytechnic institute of Tajik technical university (KPITTU). It is described the functionality of the system based on the conceptual document management scheme at the university. It is given the descriptions of the proposed multi-module system architecture with a brief description of each module. The main tasks pursued by the management information system are considered: ensuring effective management and transparency of the organization activity at all levels, information storage, data management and access regulation, formalization of the activities of each employee, optimization of business processes, saving of resources by reducing the cost of managing paper records. Optimization of educational processes and decision making for university management is analysed. Determining the efficiency from embedding automation in KPITTU is given.