Consequently, this leads to forming three subgraphs within the main graph, with each subgraph defined by an area referred to as the "interaction sphere". The edge density within each interaction sphere captures the spatial proximity relationships and emphasizes the significance of closer interactions. Specifically, some spheres demonstrated a higher edge concentration, indicating an increased likelihood of interaction between protein atoms closer to the ligand. Conversely, a low edge density is observed in spheres that enclose atoms farther away, implying a reduced impact on the ligand's binding affinity.