usefragsph not on There are 24 ligand heavy atoms Ligand center of coords (x y z): -27.6828333333333 -49.660125 -13.2967083333333 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1325 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 656 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 656 Number of spheres polar: 174, nonpolar: 409, out of current total: 656 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -37.68222 -17.72622 -59.62257 -39.76443 -23.23924 -3.32753 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 347 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 301 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 238 Spheres center of coords (x y z): -25.3233385294118 -51.714661092437 -15.5600688235294 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: 5.16652891328276 Final number of output spheres is: 60 Number of polar spheres: 13 Number of nonpolar spheres: 40 Number of spheres that are near neither polar nor nonpolar receptor atoms: 7 Final number of spheres that are from crystallographic ligand: 24