usefragsph not on There are 33 ligand heavy atoms Ligand center of coords (x y z): 27.1576666666667 9.76342424242424 -17.9340909090909 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 938 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 643 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 634 Number of spheres polar: 123, nonpolar: 393, out of current total: 634 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 17.32685 37.02093 2.44083 19.57882 -27.87737 -7.94091 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 344 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 295 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 286 Spheres center of coords (x y z): 27.815056048951 12.1779608741259 -17.6800185314685 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: 4.27708131285209 Final number of output spheres is: 60 Number of polar spheres: 21 Number of nonpolar spheres: 38 Number of spheres that are near neither polar nor nonpolar receptor atoms: 1 Final number of spheres that are from crystallographic ligand: 33