As described in the method section, we construct a graph using pairwise atomic distances. Graphs were generated at the atomic level, representing protein and ligand atoms as nodes. Figure illustrates the schematic representation. The distance thresholds essentially acted as guiding parameters. They defined a range around each ligand atom, delimiting which atoms fell within the proximity of the ligand atoms. This spatial region, defined by each threshold, creats what we refer to as an "interaction sphere." This interaction sphere conceptually represents the proximity within which potential molecular interactions are considered relevant and possible. This inherent variation in edge density (number of edges divided by the volume of the sphere) across different interaction spheres, becoming the focus of our analysis. The analysis of edge density was performed by calculating the number of edges present within each sphere for every ligand atom. These calculations offer valuable insights into the prevalence and distribution of connections occurring within distinct distance intervals around each ligand atom. Figure illustrates the density analysis performed on the PDB ID 5E89. The ligand under investigation consists of 80 atoms, and for each atom, the edge density within its corresponding interaction sphere was computed. Notably, each ligand atom was associated with three interaction spheres aligned with a specific distance threshold. We can observe that the edge density decreases by increasing the threshold. For instance edge density for the 3Å threshold is higher than the 6Å threshold, and so on for all ligand atoms.