usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): -17.5031428571429 5.79419047619048 18.703619047619 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1978 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1167 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1167 Number of spheres polar: 358, nonpolar: 638, out of current total: 1167 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -26.23852 -7.53965 -4.20503 15.73297 8.72061 28.65772 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 614 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 523 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 490 Spheres center of coords (x y z): -17.4287692857143 4.11391295918368 21.4723601836735 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: 7.28358513595011 Final number of output spheres is: 60 Number of polar spheres: 34 Number of nonpolar spheres: 22 Number of spheres that are near neither polar nor nonpolar receptor atoms: 4 Final number of spheres that are from crystallographic ligand: 21