usefragsph not on There are 27 ligand heavy atoms Ligand center of coords (x y z): 8.04759259259259 1.75462962962963 25.3568518518519 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1884 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): 1012 Number of spheres polar: 377, nonpolar: 394, out of current total: 1012 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -1.94600 17.90072 -8.21661 11.71155 15.36836 35.34764 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 301 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 236 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 223 Spheres center of coords (x y z): 5.06772605381166 1.61876291479821 26.8903834977578 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: 5.52438643001274 Final number of output spheres is: 45 Number of polar spheres: 6 Number of nonpolar spheres: 20 Number of spheres that are near neither polar nor nonpolar receptor atoms: 19 Final number of spheres that are from crystallographic ligand: 27