usefragsph not on There are 33 ligand heavy atoms Ligand center of coords (x y z): -25.9901515151515 37.1024242424242 22.5890909090909 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 854 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 611 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 610 Number of spheres polar: 101, nonpolar: 226, out of current total: 610 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -32.18000 -16.01114 27.11264 47.05031 12.59716 32.49947 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 394 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 354 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 317 Spheres center of coords (x y z): -23.9991562776025 39.1526674447949 24.2555526498423 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: 5.17161215957295 Final number of output spheres is: 60 Number of polar spheres: 14 Number of nonpolar spheres: 24 Number of spheres that are near neither polar nor nonpolar receptor atoms: 22 Final number of spheres that are from crystallographic ligand: 33