usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 27.0158095238095 2.29728571428571 4.361 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 868 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 279 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 279 Number of spheres polar: 91, nonpolar: 147, out of current total: 279 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 18.02421 36.70219 -4.48685 12.22765 -5.57561 14.34279 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 141 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 120 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 84 Spheres center of coords (x y z): 26.9567225 1.86966595238095 4.23644702380953 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: 1.79315412995346 Final number of output spheres is: 60 Number of polar spheres: 16 Number of nonpolar spheres: 33 Number of spheres that are near neither polar nor nonpolar receptor atoms: 11 Final number of spheres that are from crystallographic ligand: 21