usefragsph not on There are 40 ligand heavy atoms Ligand center of coords (x y z): 10.397175 41.86925 31.866675 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1314 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 832 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 827 Number of spheres polar: 232, nonpolar: 365, out of current total: 827 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 0.69856 20.27877 31.90286 51.84801 21.91363 41.81477 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 294 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 249 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 216 Spheres center of coords (x y z): 8.15662935185185 41.56793375 33.3101169907407 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: 5.1822832565158 Final number of output spheres is: 45 Number of polar spheres: 12 Number of nonpolar spheres: 25 Number of spheres that are near neither polar nor nonpolar receptor atoms: 8 Final number of spheres that are from crystallographic ligand: 40