usefragsph not on There are 41 ligand heavy atoms Ligand center of coords (x y z): -9.66456097560975 16.1790975609756 1.86014634146342 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1412 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 735 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 735 Number of spheres polar: 184, nonpolar: 378, out of current total: 735 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -18.79932 0.32243 6.20655 26.14253 -8.13101 11.63713 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 424 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 375 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 349 Spheres center of coords (x y z): -9.44045126074499 15.2209316618911 1.33019925501433 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: 3.95376874112472 Final number of output spheres is: 60 Number of polar spheres: 21 Number of nonpolar spheres: 30 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 41