usefragsph not on There are 39 ligand heavy atoms Ligand center of coords (x y z): 33.6847948717949 28.4169743589744 20.578641025641 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1008 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 521 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 516 Number of spheres polar: 149, nonpolar: 182, out of current total: 516 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 23.70119 43.62221 18.51978 38.36787 12.68021 25.12100 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: 301 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 291 Spheres center of coords (x y z): 33.6643402061855 27.5187204123711 19.3513112371134 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: 4.68388543851794 Final number of output spheres is: 60 Number of polar spheres: 25 Number of nonpolar spheres: 22 Number of spheres that are near neither polar nor nonpolar receptor atoms: 13 Final number of spheres that are from crystallographic ligand: 39