usefragsph not on There are 31 ligand heavy atoms Ligand center of coords (x y z): -8.45993548387097 3.97761290322581 -26.5674838709677 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1773 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 860 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 860 Number of spheres polar: 223, nonpolar: 365, out of current total: 860 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -18.43821 1.53161 -5.97456 13.95822 -36.55140 -16.58453 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 517 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 438 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 428 Spheres center of coords (x y z): -10.3975719626168 3.2725761682243 -23.9323981074766 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: 5.47740355455547 Final number of output spheres is: 60 Number of polar spheres: 23 Number of nonpolar spheres: 21 Number of spheres that are near neither polar nor nonpolar receptor atoms: 16 Final number of spheres that are from crystallographic ligand: 31