usefragsph not on There are 22 ligand heavy atoms Ligand center of coords (x y z): -4.57886363636364 4.90286363636364 14.3249545454545 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 856 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 536 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 531 Number of spheres polar: 110, nonpolar: 243, out of current total: 531 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -13.19399 5.34235 -4.98272 14.89546 4.54127 24.12778 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 312 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 273 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 241 Spheres center of coords (x y z): -4.40962601659751 6.52837211618257 11.2537979253112 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: 5.2129575884815 Final number of output spheres is: 60 Number of polar spheres: 10 Number of nonpolar spheres: 32 Number of spheres that are near neither polar nor nonpolar receptor atoms: 18 Final number of spheres that are from crystallographic ligand: 22