usefragsph not on There are 22 ligand heavy atoms Ligand center of coords (x y z): -3.45140909090909 5.46431818181818 14.6477727272727 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 703 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 405 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 393 Number of spheres polar: 74, nonpolar: 215, out of current total: 393 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -11.65138 6.33952 -4.21248 13.52349 4.92872 24.53452 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 170 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 137 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 118 Spheres center of coords (x y z): -2.61523525423729 5.16955779661017 12.3438479661017 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: 4.4597832831603 Final number of output spheres is: 45 Number of polar spheres: 9 Number of nonpolar spheres: 17 Number of spheres that are near neither polar nor nonpolar receptor atoms: 19 Final number of spheres that are from crystallographic ligand: 22