usefragsph not on There are 29 ligand heavy atoms Ligand center of coords (x y z): -19.9661724137931 59.7552413793103 4.36879310344827 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1522 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 445 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 445 Number of spheres polar: 134, nonpolar: 240, out of current total: 445 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -29.95040 -9.97535 49.76079 69.43584 -5.60338 12.62337 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 146 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 121 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 77 Spheres center of coords (x y z): -20.1310462337662 59.5894354545455 4.37987 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: 1.89720392767539 Final number of output spheres is: 45 Number of polar spheres: 11 Number of nonpolar spheres: 29 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 29