usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): 15.9487941176471 -6.11441176470588 17.7980588235294 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1686 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 884 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 884 Number of spheres polar: 353, nonpolar: 295, out of current total: 884 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 6.02295 25.94365 -15.90943 3.78634 7.92385 27.78803 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 309 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 254 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 234 Spheres center of coords (x y z): 15.3553544871795 -4.39135606837607 20.0504205128205 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: 5.61470700139423 Final number of output spheres is: 45 Number of polar spheres: 15 Number of nonpolar spheres: 24 Number of spheres that are near neither polar nor nonpolar receptor atoms: 6 Final number of spheres that are from crystallographic ligand: 34