usefragsph not on There are 30 ligand heavy atoms Ligand center of coords (x y z): -2.10203333333333 5.57206666666667 13.4156666666667 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 740 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 537 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 531 Number of spheres polar: 87, nonpolar: 311, out of current total: 531 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -11.37982 7.46653 -4.42388 15.46697 3.44808 23.25341 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 204 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 173 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 130 Spheres center of coords (x y z): -4.24585976923077 5.68318746153846 11.6941403076923 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: 4.20465737916997 Final number of output spheres is: 45 Number of polar spheres: 8 Number of nonpolar spheres: 20 Number of spheres that are near neither polar nor nonpolar receptor atoms: 17 Final number of spheres that are from crystallographic ligand: 30