usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): 1.84888235294118 67.9543823529412 83.3956764705882 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2018 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1089 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1089 Number of spheres polar: 258, nonpolar: 683, out of current total: 1089 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -5.79218 11.84094 57.95497 77.88581 73.44102 93.33319 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 543 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 470 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 437 Spheres center of coords (x y z): 1.667123798627 68.0296643707094 81.2902941876429 Crystallographic ligand, so keeping spheres closest to ANY ligand atom, center of ligand (1/8), and center of spheres (1/8) Average weighted-distance for final elimination is: 5.46644714363144 Final number of output spheres is: 60 Number of polar spheres: 19 Number of nonpolar spheres: 34 Number of spheres that are near neither polar nor nonpolar receptor atoms: 7 Final number of spheres that are from crystallographic ligand: 34