usefragsph not on There are 28 ligand heavy atoms Ligand center of coords (x y z): 38.9347142857143 -0.953392857142857 14.0515714285714 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 787 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 421 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 421 Number of spheres polar: 147, nonpolar: 147, out of current total: 421 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 28.95391 48.87584 -10.58063 8.89567 4.36126 24.05045 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 283 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 246 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 225 Spheres center of coords (x y z): 40.9570094222222 -0.400714622222222 13.6268493777778 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: 5.22095779711114 Final number of output spheres is: 60 Number of polar spheres: 14 Number of nonpolar spheres: 27 Number of spheres that are near neither polar nor nonpolar receptor atoms: 19 Final number of spheres that are from crystallographic ligand: 28