usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 34.260619047619 35.7013333333333 31.5360476190476 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 849 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 521 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 507 Number of spheres polar: 265, nonpolar: 143, out of current total: 507 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 24.28542 44.03582 25.82102 45.63741 21.53765 41.33457 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 273 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 234 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 198 Spheres center of coords (x y z): 34.6014731313131 38.3052019191919 31.2948587373737 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: 5.9754571055617 Final number of output spheres is: 60 Number of polar spheres: 35 Number of nonpolar spheres: 15 Number of spheres that are near neither polar nor nonpolar receptor atoms: 10 Final number of spheres that are from crystallographic ligand: 21