usefragsph not on There are 23 ligand heavy atoms Ligand center of coords (x y z): 21.0132608695652 4.23721739130435 1.47873913043478 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1267 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 484 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 484 Number of spheres polar: 195, nonpolar: 250, out of current total: 484 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 11.05083 30.97980 -5.12552 11.50900 -8.49012 11.33648 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 143 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 111 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 58 Spheres center of coords (x y z): 21.0764565517241 4.39350137931034 1.61676965517241 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: 1.73361297702578 Final number of output spheres is: 45 Number of polar spheres: 9 Number of nonpolar spheres: 31 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 23