usefragsph not on There are 40 ligand heavy atoms Ligand center of coords (x y z): 29.973325 42.70565 1.7684 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2006 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1066 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1061 Number of spheres polar: 388, nonpolar: 432, out of current total: 1061 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 20.03449 39.91523 32.73029 52.66585 -8.18909 11.70119 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 337 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 278 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 266 Spheres center of coords (x y z): 28.4634446616542 43.8683385338346 -0.682550751879699 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: 5.63472268391882 Final number of output spheres is: 45 Number of polar spheres: 13 Number of nonpolar spheres: 26 Number of spheres that are near neither polar nor nonpolar receptor atoms: 6 Final number of spheres that are from crystallographic ligand: 40