usefragsph not on There are 10 ligand heavy atoms Ligand center of coords (x y z): 4.6304 66.0529 62.7138 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 865 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 516 WARNING: removing a crystallographic sphere that is distance 1.02089421587156 angstroms from closest receptor atom Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 515 Number of spheres polar: 193, nonpolar: 266, out of current total: 515 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -5.35685 13.54300 56.08400 76.03659 55.12188 72.68984 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 245 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 200 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 188 Spheres center of coords (x y z): 2.40687430851064 65.0409084042553 66.9577526595744 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: 6.33125306007451 Final number of output spheres is: 60 Number of polar spheres: 25 Number of nonpolar spheres: 29 Number of spheres that are near neither polar nor nonpolar receptor atoms: 6 Final number of spheres that are from crystallographic ligand: 9