usefragsph not on There are 10 ligand heavy atoms Ligand center of coords (x y z): 27.8373 17.559 13.7195 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 977 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 655 WARNING: removing a crystallographic sphere that is distance 0.968524651209249 angstroms from closest receptor atom Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 654 Number of spheres polar: 295, nonpolar: 287, out of current total: 654 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 17.84147 37.58059 8.18135 27.52314 3.83343 23.70719 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 195 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 145 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 110 Spheres center of coords (x y z): 31.355317 21.537166 11.410667 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: 7.51253509272508 Final number of output spheres is: 45 Number of polar spheres: 24 Number of nonpolar spheres: 17 Number of spheres that are near neither polar nor nonpolar receptor atoms: 4 Final number of spheres that are from crystallographic ligand: 9