usefragsph not on There are 27 ligand heavy atoms Ligand center of coords (x y z): 7.89937037037037 2.70051851851852 25.4454444444445 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2279 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1062 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1062 Number of spheres polar: 369, nonpolar: 424, out of current total: 1062 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -2.03355 16.18951 -7.06200 12.68566 15.52875 35.41899 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: 242 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 232 Spheres center of coords (x y z): 5.73159181034483 2.17038767241379 27.0407418534483 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: 5.84983075209303 Final number of output spheres is: 45 Number of polar spheres: 11 Number of nonpolar spheres: 18 Number of spheres that are near neither polar nor nonpolar receptor atoms: 16 Final number of spheres that are from crystallographic ligand: 27