usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): -25.8841904761905 29.9649523809524 -40.7839523809524 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 855 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 619 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 613 Number of spheres polar: 260, nonpolar: 217, out of current total: 613 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -35.82860 -15.95913 20.05225 39.78369 -50.69967 -31.00313 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 196 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 158 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 124 Spheres center of coords (x y z): -24.894455 31.1068097580645 -39.8669425806451 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: 5.18289730635855 Final number of output spheres is: 45 Number of polar spheres: 17 Number of nonpolar spheres: 19 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 21