usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): 7.64102941176471 5.41797058823529 21.8890588235294 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1124 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 717 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 716 Number of spheres polar: 197, nonpolar: 356, out of current total: 716 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -2.32979 17.62500 -4.55683 15.23148 11.94759 31.81455 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 227 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 199 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 179 Spheres center of coords (x y z): 5.76589558659218 5.93561363128492 20.3009298882682 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: 5.13430242768573 Final number of output spheres is: 45 Number of polar spheres: 10 Number of nonpolar spheres: 27 Number of spheres that are near neither polar nor nonpolar receptor atoms: 8 Final number of spheres that are from crystallographic ligand: 34