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Ubiquitin is a small signaling protein with 76 amino acids highly conserved throughout eukaryotes,which is ubiquitously involved in all aspects of cellular activities, such as proteasomal degradation, immune response, and DNA damage repair. It has also been a target protein for studying the interaction involving nanomaterials because of its small size and having one of the lowest molecular weight among the functional proteins. As for graphene quantum dots (GQDs), they have attracted intensive interest due to their extraordinary properties, and great potentials for the development of bio-applications in bioimaging, drug carrier, and so on.