usefragsph not on There are 8 ligand heavy atoms Ligand center of coords (x y z): -5.9115 1.38725 16.824 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 510 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 375 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 373 Number of spheres polar: 109, nonpolar: 191, out of current total: 373 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -11.85891 3.92117 -4.11084 11.08928 6.82944 25.63645 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: 177 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 155 Spheres center of coords (x y z): -3.8822435483871 5.01758832258064 12.9682004516129 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: 6.67952038701202 Final number of output spheres is: 60 Number of polar spheres: 19 Number of nonpolar spheres: 35 Number of spheres that are near neither polar nor nonpolar receptor atoms: 6 Final number of spheres that are from crystallographic ligand: 8