usefragsph not on There are 19 ligand heavy atoms Ligand center of coords (x y z): -4.75494736842105 4.03163157894737 14.7075263157895 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 573 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 395 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 394 Number of spheres polar: 84, nonpolar: 229, out of current total: 394 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -12.14933 5.01326 -5.29085 12.22136 4.77573 22.65595 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 217 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 193 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 188 Spheres center of coords (x y z): -4.21678989361702 5.28520244680851 12.1023437765957 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: 4.6428591956298 Final number of output spheres is: 60 Number of polar spheres: 15 Number of nonpolar spheres: 34 Number of spheres that are near neither polar nor nonpolar receptor atoms: 11 Final number of spheres that are from crystallographic ligand: 19