usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): 17.5149117647059 -4.21935294117647 -6.04617647058824 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1235 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 705 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 702 Number of spheres polar: 254, nonpolar: 301, out of current total: 702 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 7.54189 26.41053 -14.11525 5.73769 -16.03982 3.68733 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 395 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 340 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 318 Spheres center of coords (x y z): 18.0285124213837 -4.94083075471698 -5.57283977987421 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: 6.5599153133368 Final number of output spheres is: 60 Number of polar spheres: 29 Number of nonpolar spheres: 28 Number of spheres that are near neither polar nor nonpolar receptor atoms: 3 Final number of spheres that are from crystallographic ligand: 34