usefragsph not on There are 8 ligand heavy atoms Ligand center of coords (x y z): 15.719625 3.821625 15.316625 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 580 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 387 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 382 Number of spheres polar: 111, nonpolar: 187, out of current total: 382 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 9.73137 25.54028 -5.85552 13.34075 5.51329 24.78163 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 205 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 179 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 171 Spheres center of coords (x y z): 16.8772537426901 6.32478877192982 12.5340167836257 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: 5.59703076472699 Final number of output spheres is: 60 Number of polar spheres: 21 Number of nonpolar spheres: 31 Number of spheres that are near neither polar nor nonpolar receptor atoms: 8 Final number of spheres that are from crystallographic ligand: 8