The article discusses the prospects for the formation of an ecosystem of education, science and innovation in the area of the Krasnoyarsk Territory. The modern context of cooperation between universities and scientific organizations with industrial companies in the field of R&D and training is considered. The perspective of cooperation is set by digitalization of production, by «cognitivization» of large systems, and by deep institutional transformation – that is, by the spread of network formats for the organization of production, consumption and management. On the basis of digital technologies, a new type of cooperation is being formed – intellectual ecosystems uniting production, scientific and educational organizations with governing bodies. The article considers the existing ideas about «business ecosystems», «innovation ecosystems», and the characteristic features of these ecosystems. In order to study the prospects for the formation of an ecosystem of education, science and innovation in the Krasnoyarsk Territory, 1) a comparative analysis of the indicators of scientific and innovative activity in the region is carried out; 2) the scope and prospects of interaction of universities, research institutions and business in the region are assessed. The basis of this assessment is a questionnaire survey of representatives of large companies, leading universities and research organizations in the region. The priorities of business in the field of R&D and consulting, training and retraining of personnel are identified, the financing of R&D and consulting from companies over the past 5 years and planned funding for the next 5 years are estimated. The possible structure of the scientific and educational ecosystem of the Krasnoyarsk Territory is presented, including universities and academic institutions, technology companies, leading scientific and technological centers, technological consortia, negotiation platforms for science and business, elements of the innovation infrastructure, state authorities, management structures and communications. Within this ecosystem, the Expert institution «Yenisei Siberia», Research and Education Center «Yenisei Siberia: Industry 4.0» (uniting universities, research institutes and high-tech companies), Innovation Scientific and Technological Center of the Krasnoyarsk Territory should become special institutions.