usefragsph not on There are 33 ligand heavy atoms Ligand center of coords (x y z): 15.3807272727273 2.56254545454545 38.0457575757576 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2253 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1075 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1075 Number of spheres polar: 218, nonpolar: 724, out of current total: 1075 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 5.40856 25.24897 -7.21271 12.39718 28.07886 48.04151 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 498 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 408 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 393 Spheres center of coords (x y z): 12.0697289821883 1.13715005089059 38.8530394147582 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: 5.44627375268355 Final number of output spheres is: 60 Number of polar spheres: 15 Number of nonpolar spheres: 43 Number of spheres that are near neither polar nor nonpolar receptor atoms: 2 Final number of spheres that are from crystallographic ligand: 33