usefragsph not on There are 16 ligand heavy atoms Ligand center of coords (x y z): 11.9036875 -0.2575625 23.3993125 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1246 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 659 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 659 Number of spheres polar: 271, nonpolar: 215, out of current total: 659 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 1.95582 21.85550 -10.01280 9.29227 13.50677 33.33991 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 194 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 147 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 125 Spheres center of coords (x y z): 8.1240352 0.75839088 26.89760856 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: 6.2648765871593 Final number of output spheres is: 45 Number of polar spheres: 14 Number of nonpolar spheres: 20 Number of spheres that are near neither polar nor nonpolar receptor atoms: 11 Final number of spheres that are from crystallographic ligand: 16