usefragsph not on There are 27 ligand heavy atoms Ligand center of coords (x y z): -3.19062962962963 -8.58755555555556 24.5886666666667 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1069 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 397 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 397 Number of spheres polar: 120, nonpolar: 238, out of current total: 397 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -13.12961 6.42216 -18.51122 1.30031 14.61065 34.57726 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 196 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 175 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 119 Spheres center of coords (x y z): -2.97703663865546 -8.62875050420168 24.6032840336134 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: 1.84017617212437 Final number of output spheres is: 60 Number of polar spheres: 13 Number of nonpolar spheres: 39 Number of spheres that are near neither polar nor nonpolar receptor atoms: 8 Final number of spheres that are from crystallographic ligand: 27