usefragsph not on There are 42 ligand heavy atoms Ligand center of coords (x y z): 40.3984523809524 18.1925714285714 65.0449285714286 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1232 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 819 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 819 Number of spheres polar: 169, nonpolar: 518, out of current total: 819 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 30.40515 50.35070 8.38496 28.17940 55.30176 74.81191 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 469 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 399 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 343 Spheres center of coords (x y z): 40.1508394752187 18.4878590087464 65.3772932653061 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: 3.78288951098896 Final number of output spheres is: 60 Number of polar spheres: 19 Number of nonpolar spheres: 39 Number of spheres that are near neither polar nor nonpolar receptor atoms: 2 Final number of spheres that are from crystallographic ligand: 42