usefragsph not on There are 36 ligand heavy atoms Ligand center of coords (x y z): 30.5649166666667 39.9060833333333 -0.156638888888889 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1804 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1132 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1132 Number of spheres polar: 385, nonpolar: 384, out of current total: 1132 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 20.60094 40.34993 29.90778 49.89448 -10.15010 9.77913 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 395 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 324 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 318 Spheres center of coords (x y z): 28.9807439622641 40.7640469811321 -2.07988921383648 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: 6.49616613173788 Final number of output spheres is: 45 Number of polar spheres: 12 Number of nonpolar spheres: 28 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 36