usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): -1.79864705882353 5.17632352941177 24.0044411764706 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1153 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 572 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 566 Number of spheres polar: 203, nonpolar: 197, out of current total: 566 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -11.79404 8.20125 -4.66809 15.14234 14.02100 33.96720 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 339 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 287 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 266 Spheres center of coords (x y z): -2.88474996240602 4.03611368421053 23.5533068421053 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: 5.97973522542893 Final number of output spheres is: 60 Number of polar spheres: 22 Number of nonpolar spheres: 27 Number of spheres that are near neither polar nor nonpolar receptor atoms: 11 Final number of spheres that are from crystallographic ligand: 34