usefragsph not on There are 33 ligand heavy atoms Ligand center of coords (x y z): 11.7340909090909 -8.84418181818182 9.57993939393939 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1552 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 885 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 885 Number of spheres polar: 309, nonpolar: 353, out of current total: 885 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 1.73730 21.71081 -18.82690 1.12300 -0.39288 19.50135 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 311 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 258 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 226 Spheres center of coords (x y z): 11.6422184955752 -8.47977765486725 7.89619207964602 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: 5.25018896481561 Final number of output spheres is: 45 Number of polar spheres: 14 Number of nonpolar spheres: 22 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 33