usefragsph not on There are 45 ligand heavy atoms Ligand center of coords (x y z): 19.5420666666667 23.8334666666667 14.7687111111111 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2250 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1104 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1102 Number of spheres polar: 305, nonpolar: 449, out of current total: 1102 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 9.58049 29.49672 15.05241 33.78309 4.77605 24.76387 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 656 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 572 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 555 Spheres center of coords (x y z): 19.1546294594594 27.0091921261261 14.8194322522523 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: 5.93565979930318 Final number of output spheres is: 60 Number of polar spheres: 23 Number of nonpolar spheres: 29 Number of spheres that are near neither polar nor nonpolar receptor atoms: 8 Final number of spheres that are from crystallographic ligand: 45