usefragsph not on There are 36 ligand heavy atoms Ligand center of coords (x y z): 17.6138333333333 -13.3139722222222 22.8811666666667 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1456 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 878 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 875 Number of spheres polar: 278, nonpolar: 365, out of current total: 875 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 7.80344 27.52262 -22.85689 -3.44414 12.88424 32.78679 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 473 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 406 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 384 Spheres center of coords (x y z): 17.5103091666667 -15.5476091666667 22.4670827604166 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: 5.38651472315329 Final number of output spheres is: 60 Number of polar spheres: 19 Number of nonpolar spheres: 31 Number of spheres that are near neither polar nor nonpolar receptor atoms: 10 Final number of spheres that are from crystallographic ligand: 36