usefragsph not on There are 41 ligand heavy atoms Ligand center of coords (x y z): 9.80078048780488 -2.09287804878049 48.8044146341463 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2163 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1145 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1145 Number of spheres polar: 432, nonpolar: 432, out of current total: 1145 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -0.17867 19.78275 -11.84568 7.89290 39.13320 58.76823 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 379 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 290 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 289 Spheres center of coords (x y z): 9.69244401384082 0.32505830449827 51.0940847058823 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: 5.92715268853794 Final number of output spheres is: 45 Number of polar spheres: 16 Number of nonpolar spheres: 27 Number of spheres that are near neither polar nor nonpolar receptor atoms: 2 Final number of spheres that are from crystallographic ligand: 41