usefragsph not on There are 30 ligand heavy atoms Ligand center of coords (x y z): -2.02273333333333 32.7746666666667 -8.1692 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1889 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1000 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1000 Number of spheres polar: 253, nonpolar: 610, out of current total: 1000 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -11.94884 7.96095 22.82955 42.72762 -17.86544 1.62810 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 328 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 262 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 249 Spheres center of coords (x y z): -0.654185903614458 34.5265104016064 -7.07459060240964 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: 6.62861626331005 Final number of output spheres is: 45 Number of polar spheres: 17 Number of nonpolar spheres: 25 Number of spheres that are near neither polar nor nonpolar receptor atoms: 3 Final number of spheres that are from crystallographic ligand: 30