usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 32.6115238095238 34.1224285714286 14.4787619047619 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1867 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 939 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 939 Number of spheres polar: 259, nonpolar: 548, out of current total: 939 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 22.68921 41.07478 24.14725 44.11500 4.48825 24.47829 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 494 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 429 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 406 Spheres center of coords (x y z): 31.5010969950739 30.7223986453202 15.02176591133 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: 7.00676134556362 Final number of output spheres is: 60 Number of polar spheres: 25 Number of nonpolar spheres: 29 Number of spheres that are near neither polar nor nonpolar receptor atoms: 6 Final number of spheres that are from crystallographic ligand: 21