usefragsph not on There are 41 ligand heavy atoms Ligand center of coords (x y z): 37.2493414634146 -6.14246341463415 39.1627073170732 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2759 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1108 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1108 Number of spheres polar: 154, nonpolar: 795, out of current total: 1108 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 27.25550 47.13747 -16.13446 3.83459 29.24866 49.16215 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 323 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 272 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 247 Spheres center of coords (x y z): 33.6750061133603 -4.65736748987854 39.6957512550607 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: 5.45638335744619 Final number of output spheres is: 45 Number of polar spheres: 7 Number of nonpolar spheres: 36 Number of spheres that are near neither polar nor nonpolar receptor atoms: 2 Final number of spheres that are from crystallographic ligand: 41