usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): 17.8425588235294 134.233852941176 -2.02008823529412 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1536 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1025 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1025 Number of spheres polar: 220, nonpolar: 417, out of current total: 1025 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 8.11648 27.83793 125.96739 144.22243 -11.77428 7.95102 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 584 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 508 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 489 Spheres center of coords (x y z): 19.1168803680982 135.394701083845 -1.53825470347649 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: 5.96831317661234 Final number of output spheres is: 60 Number of polar spheres: 8 Number of nonpolar spheres: 15 Number of spheres that are near neither polar nor nonpolar receptor atoms: 37 Final number of spheres that are from crystallographic ligand: 34