usefragsph not on There are 17 ligand heavy atoms Ligand center of coords (x y z): 15.4936470588235 33.2580588235294 -8.4844705882353 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1379 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 738 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 738 Number of spheres polar: 337, nonpolar: 328, out of current total: 738 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 5.50216 25.44244 23.26807 43.21798 -18.30761 1.50721 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 391 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 328 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 256 Spheres center of coords (x y z): 13.55071203125 35.705579765625 -7.908667421875 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: 5.70799259021093 Final number of output spheres is: 60 Number of polar spheres: 31 Number of nonpolar spheres: 18 Number of spheres that are near neither polar nor nonpolar receptor atoms: 11 Final number of spheres that are from crystallographic ligand: 17