usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 45.6550952380952 -0.549333333333333 37.9195714285714 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1210 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 404 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 404 Number of spheres polar: 149, nonpolar: 221, out of current total: 404 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 36.61338 55.64738 -10.51840 9.44589 27.94549 47.05248 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 226 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 184 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 117 Spheres center of coords (x y z): 46.2583452136752 -0.576614957264957 37.2579652991453 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: 2.44920328434153 Final number of output spheres is: 60 Number of polar spheres: 14 Number of nonpolar spheres: 41 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 21