The introduction of nanomaterials into polymethyl methacrylate (PMMA) resin has been effective for mechanically reinforcing PMMA for application in oral denture bases. However, these methods cannot simultaneously improve the mechanical and antibacterial properties, which limits widespread clinical application. Here, we self-assembled binary nanocomposites of boron nitride nanosheets (h-BNNs) and silver nanoparticles (AgNPs) as nanofillers and incorporated the nanofillers into PMMA. The aim of this study was to achieve antibacterial effects while significantly improving the mechanical properties of PMMA and provide a theoretical basis for further clinical application. We employed scanning electron microscopy (SEM), X-ray diffraction (XRD), Raman spectroscopy (Raman), Ultraviolet visible spectrum (UV) and atomic force microscopy (AFM) to investigate the microscopic morphology and composition of PMMA containing nanocomposites with different mass fraction. In addition, the content of the h-BNNs/AgNPs was 1 wt%, and the compressive strength and flexural strength of pure PMMA were improved by 53.5% and 56.7%, respectively. When the concentration of the nanocomposite in the PMMA resin was 1.4 wt%, the antibacterial rate was 92.1%. Overall, synergistically reinforcing PMMA composite resin with a multi-dimensional nanocomposite structure provided a new perspective for expanding not only the application of resins in clinical settings but also the research and development of new composite resins.