usefragsph not on There are 22 ligand heavy atoms Ligand center of coords (x y z): -0.829636363636363 -35.1027727272727 24.2678181818182 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1538 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 715 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 715 Number of spheres polar: 237, nonpolar: 397, out of current total: 715 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -10.80237 9.16773 -45.05481 -25.11474 14.27329 34.25791 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 398 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 317 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 197 Spheres center of coords (x y z): 2.52781817258883 -36.7767479187817 21.9028017258883 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: 5.03440509701328 Final number of output spheres is: 60 Number of polar spheres: 9 Number of nonpolar spheres: 48 Number of spheres that are near neither polar nor nonpolar receptor atoms: 3 Final number of spheres that are from crystallographic ligand: 22