usefragsph not on There are 38 ligand heavy atoms Ligand center of coords (x y z): -18.8270526315789 -34.9045263157895 20.5948947368421 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1550 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 982 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 982 Number of spheres polar: 354, nonpolar: 396, out of current total: 982 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -28.80582 -8.83827 -44.52082 -24.98797 10.62551 30.57513 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 334 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 263 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 234 Spheres center of coords (x y z): -18.9398707692308 -36.3016866239316 20.4532144871795 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: 5.36711905009116 Final number of output spheres is: 45 Number of polar spheres: 6 Number of nonpolar spheres: 30 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 38