usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): 17.0870882352941 135.225763235294 -0.281588235294117 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1501 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1039 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1037 Number of spheres polar: 192, nonpolar: 456, out of current total: 1037 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 7.31359 27.08237 125.23200 145.16002 -10.27721 9.60866 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 618 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 556 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 553 Spheres center of coords (x y z): 18.6574443761302 135.887705931284 -0.722117703435804 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: 6.21419055762636 Final number of output spheres is: 60 Number of polar spheres: 8 Number of nonpolar spheres: 25 Number of spheres that are near neither polar nor nonpolar receptor atoms: 27 Final number of spheres that are from crystallographic ligand: 34