usefragsph not on There are 22 ligand heavy atoms Ligand center of coords (x y z): -3.43086363636364 6.03968181818182 15.1057727272727 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 793 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 481 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 474 Number of spheres polar: 103, nonpolar: 242, out of current total: 474 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -11.42804 6.54615 -3.89812 15.89076 5.21561 24.82371 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 181 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 147 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 127 Spheres center of coords (x y z): -3.27244102362205 6.92629724409448 12.9810965354331 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: 5.16210788677711 Final number of output spheres is: 45 Number of polar spheres: 7 Number of nonpolar spheres: 30 Number of spheres that are near neither polar nor nonpolar receptor atoms: 8 Final number of spheres that are from crystallographic ligand: 22