usefragsph not on There are 28 ligand heavy atoms Ligand center of coords (x y z): -25.9059285714286 0.724607142857143 16.4587857142857 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1032 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 563 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 559 Number of spheres polar: 213, nonpolar: 205, out of current total: 559 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -35.79932 -17.54358 -9.26592 10.65402 6.47670 26.03523 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 299 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 262 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 234 Spheres center of coords (x y z): -26.7339693589744 1.28157004273504 17.2832226495727 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: 5.58419989534752 Final number of output spheres is: 60 Number of polar spheres: 29 Number of nonpolar spheres: 22 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 28