usefragsph not on There are 38 ligand heavy atoms Ligand center of coords (x y z): -4.10810526315789 34.1678421052632 -7.82271052631579 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2005 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1012 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1009 Number of spheres polar: 217, nonpolar: 650, out of current total: 1009 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -14.08459 5.87616 24.27861 44.10595 -17.56041 2.04647 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 316 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 273 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 257 Spheres center of coords (x y z): -2.94333210116732 37.1594692217899 -6.81693303501945 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: 5.57399183990494 Final number of output spheres is: 45 Number of polar spheres: 12 Number of nonpolar spheres: 32 Number of spheres that are near neither polar nor nonpolar receptor atoms: 1 Final number of spheres that are from crystallographic ligand: 38