usefragsph not on There are 18 ligand heavy atoms Ligand center of coords (x y z): -4.23688888888889 3.71088888888889 14.4024444444444 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 691 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 483 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 471 Number of spheres polar: 123, nonpolar: 231, out of current total: 471 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -13.28502 5.70971 -6.23151 12.93948 4.42311 23.13914 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 264 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 235 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 206 Spheres center of coords (x y z): -4.96131470873786 5.42011723300971 11.8016329126214 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: 4.80472381202858 Final number of output spheres is: 60 Number of polar spheres: 13 Number of nonpolar spheres: 32 Number of spheres that are near neither polar nor nonpolar receptor atoms: 15 Final number of spheres that are from crystallographic ligand: 18