usefragsph not on There are 17 ligand heavy atoms Ligand center of coords (x y z): 25.0268823529412 -0.919470588235294 -2.01711764705882 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1236 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 675 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 675 Number of spheres polar: 316, nonpolar: 299, out of current total: 675 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 15.07889 34.98656 -10.90952 9.03962 -11.99946 7.92820 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 327 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 270 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 123 Spheres center of coords (x y z): 27.2359812195122 -2.12071422764228 -1.74647032520325 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: 4.10744880674487 Final number of output spheres is: 60 Number of polar spheres: 23 Number of nonpolar spheres: 35 Number of spheres that are near neither polar nor nonpolar receptor atoms: 2 Final number of spheres that are from crystallographic ligand: 17