usefragsph not on There are 31 ligand heavy atoms Ligand center of coords (x y z): 15.8803870967742 -14.2632580645161 20.579064516129 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1239 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 843 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 842 Number of spheres polar: 254, nonpolar: 359, out of current total: 842 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 5.95447 25.85719 -23.36180 -4.27123 10.58627 30.44689 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 282 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 224 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 200 Spheres center of coords (x y z): 16.5864686 -14.9977916 19.02881195 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: 5.31953333543048 Final number of output spheres is: 45 Number of polar spheres: 9 Number of nonpolar spheres: 22 Number of spheres that are near neither polar nor nonpolar receptor atoms: 14 Final number of spheres that are from crystallographic ligand: 31