usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 0.0225714285714285 64.0982857142857 3.92133333333333 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 888 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 278 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 278 Number of spheres polar: 88, nonpolar: 149, out of current total: 278 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -9.82931 9.78762 54.14561 71.62127 -5.87038 13.90676 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 150 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 126 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 95 Spheres center of coords (x y z): -0.319895473684211 64.5208704210526 4.33379073684211 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: 1.89545748146085 Final number of output spheres is: 60 Number of polar spheres: 16 Number of nonpolar spheres: 32 Number of spheres that are near neither polar nor nonpolar receptor atoms: 12 Final number of spheres that are from crystallographic ligand: 21