usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): -3.51480952380952 4.81985714285714 15.061380952381 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 702 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 436 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 425 Number of spheres polar: 118, nonpolar: 216, out of current total: 425 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -12.53344 6.47586 -5.14053 14.66127 5.15613 24.19552 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 168 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 139 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 113 Spheres center of coords (x y z): -3.20161707964602 4.43375097345133 13.0707024778761 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: 4.26241885821137 Final number of output spheres is: 45 Number of polar spheres: 8 Number of nonpolar spheres: 23 Number of spheres that are near neither polar nor nonpolar receptor atoms: 14 Final number of spheres that are from crystallographic ligand: 21