usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): -0.0462941176470588 1.02329411764706 16.5786764705882 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 999 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 487 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 486 Number of spheres polar: 147, nonpolar: 204, out of current total: 486 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -9.99712 9.94522 -8.78400 11.00460 6.97532 26.53680 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 307 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 277 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 263 Spheres center of coords (x y z): -0.309546387832699 2.32891741444867 16.1799078326996 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: 5.39794178587391 Final number of output spheres is: 60 Number of polar spheres: 14 Number of nonpolar spheres: 38 Number of spheres that are near neither polar nor nonpolar receptor atoms: 8 Final number of spheres that are from crystallographic ligand: 34