usefragsph not on There are 29 ligand heavy atoms Ligand center of coords (x y z): 28.0416896551724 1.76089655172414 3.67686206896552 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1254 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 424 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 424 Number of spheres polar: 134, nonpolar: 246, out of current total: 424 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 18.71958 38.02660 -8.20561 11.71503 -6.25372 13.09417 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 219 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 185 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 130 Spheres center of coords (x y z): 27.7771263076923 2.00974507692308 3.70337838461538 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: 2.19599046765392 Final number of output spheres is: 60 Number of polar spheres: 15 Number of nonpolar spheres: 34 Number of spheres that are near neither polar nor nonpolar receptor atoms: 11 Final number of spheres that are from crystallographic ligand: 29