The article is devoted to methods and models of designing systems for the digital transformation of industrial enterprises within the framework of the Industry 4.0 concept. The purpose of this work is to formalize a new notation for graphical modeling of the architecture of complex large-scale systems with data-centric microservice architectures and to present a variant of the reference model of such an architecture for creating an autonomously functioning industrial enterprise. The paper provides a list and justification for the use of functional components of a data-centric microservice architecture based on the analysis of modern approaches to building systems and the authors’ own results obtained during the implementation of a number of projects. The problems of using traditional graphical modeling notations to represent a data-centric microservice architecture are considered. Examples of designing a model of such an architecture for a mining enterprise are given.