usefragsph not on There are 40 ligand heavy atoms Ligand center of coords (x y z): 30.66355 2.25105 34.5237 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2130 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1075 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1075 Number of spheres polar: 402, nonpolar: 447, out of current total: 1075 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 20.94000 40.62920 -7.73921 12.16332 24.52892 44.33187 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 595 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 510 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 505 Spheres center of coords (x y z): 32.7458678415842 0.704455425742574 35.5690176831683 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: 6.02599206568104 Final number of output spheres is: 60 Number of polar spheres: 31 Number of nonpolar spheres: 26 Number of spheres that are near neither polar nor nonpolar receptor atoms: 3 Final number of spheres that are from crystallographic ligand: 40