usefragsph not on There are 15 ligand heavy atoms Ligand center of coords (x y z): -4.94426666666667 3.37753333333333 14.8684666666667 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 634 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 438 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 437 Number of spheres polar: 115, nonpolar: 236, out of current total: 437 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -11.86798 4.66386 -4.94491 12.18474 6.21757 23.94473 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 151 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 126 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 114 Spheres center of coords (x y z): -4.17770043859649 5.37637552631579 11.715940877193 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: 4.96166047590215 Final number of output spheres is: 45 Number of polar spheres: 14 Number of nonpolar spheres: 22 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 15