usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): 29.4907352941177 0.675823529411764 53.6430882352941 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1134 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 725 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 719 Number of spheres polar: 218, nonpolar: 267, out of current total: 719 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 19.54388 39.39834 -9.30271 10.29740 43.65400 61.45404 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 413 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 364 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 344 Spheres center of coords (x y z): 28.6334610755814 0.722937180232558 53.0882300581396 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: 5.48930099426225 Final number of output spheres is: 60 Number of polar spheres: 11 Number of nonpolar spheres: 16 Number of spheres that are near neither polar nor nonpolar receptor atoms: 33 Final number of spheres that are from crystallographic ligand: 34