usefragsph not on There are 58 ligand heavy atoms Ligand center of coords (x y z): 5.17929310344828 -1.48368965517241 14.537224137931 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1457 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 801 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 801 Number of spheres polar: 124, nonpolar: 440, out of current total: 801 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -4.77823 15.11038 -11.45341 8.40324 4.59012 24.39887 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 461 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 404 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 399 Spheres center of coords (x y z): 5.02774290726817 -1.8263609273183 13.3216829323308 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: 4.61769557283738 Final number of output spheres is: 60 Number of polar spheres: 12 Number of nonpolar spheres: 43 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 58