usefragsph not on There are 22 ligand heavy atoms Ligand center of coords (x y z): 34.1654545454546 -3.62772727272727 -28.3083181818182 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 968 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 482 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 482 Number of spheres polar: 158, nonpolar: 249, out of current total: 482 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 24.16743 43.68877 -13.61793 6.21066 -36.62788 -19.84726 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 283 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 229 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 199 Spheres center of coords (x y z): 34.1740235678392 -1.30595713567839 -27.5424666834171 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: 4.689054332623 Final number of output spheres is: 60 Number of polar spheres: 20 Number of nonpolar spheres: 39 Number of spheres that are near neither polar nor nonpolar receptor atoms: 1 Final number of spheres that are from crystallographic ligand: 22