usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 27.1035714285714 2.44919047619048 4.9997619047619 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 966 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 273 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 273 Number of spheres polar: 85, nonpolar: 152, out of current total: 273 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 17.26077 36.96009 -3.25842 12.40988 -4.95222 14.97745 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 136 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 120 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 84 Spheres center of coords (x y z): 27.3396401190476 2.03284154761905 5.31146095238095 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: 1.88222048044218 Final number of output spheres is: 60 Number of polar spheres: 16 Number of nonpolar spheres: 30 Number of spheres that are near neither polar nor nonpolar receptor atoms: 14 Final number of spheres that are from crystallographic ligand: 21