usefragsph not on There are 28 ligand heavy atoms Ligand center of coords (x y z): 20.1082857142857 4.10985714285714 18.6363928571429 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2177 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1260 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1256 Number of spheres polar: 350, nonpolar: 789, out of current total: 1256 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 10.17059 29.64716 -5.87676 14.07220 8.64328 28.56976 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 653 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 561 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 560 Spheres center of coords (x y z): 19.4934265 3.15985914285714 16.3198296785714 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: 7.1000813093867 Final number of output spheres is: 60 Number of polar spheres: 21 Number of nonpolar spheres: 34 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 28