usefragsph not on There are 31 ligand heavy atoms Ligand center of coords (x y z): 2.15354838709677 14.3338709677419 -8.89690322580645 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2163 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1051 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1051 Number of spheres polar: 217, nonpolar: 735, out of current total: 1051 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -7.83131 12.09547 4.45899 24.09074 -18.89683 0.97484 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 504 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 432 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 415 Spheres center of coords (x y z): 5.23193072289157 13.7581634216867 -10.8852878795181 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: 6.67866302962684 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: 31