Abstract: A multi-cluster collaborative cognition-based information system architecture was proposed from four aspects: overall architecture, hardware architecture, software architecture and protocol architecture, in response to Queqiao constellation system's characteristics, such as super-large space-time scale, extreme spatial environment, and serious limitation of onboard resources, as well as the challenges of heterogeneous function fusion and resource collaborative scheduling, intelligent autonomous operation under intermittent link connection, and interconnection and elastic networking between satellites. With the perception-decision-execution loop at its center, it will effectively enhance cislunar space information interaction and intelligent collaboration capabilities, realize adaptive topology management, multi-source data fusion, and autonomous constellation system operation, and provide reference for the design of future constellation information systems.