usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 27.1989047619048 2.16042857142857 4.05833333333333 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 909 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 273 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 273 Number of spheres polar: 81, nonpolar: 157, out of current total: 273 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 17.29938 37.18306 -7.13399 12.12557 -5.68928 13.90714 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 139 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 117 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 79 Spheres center of coords (x y z): 27.1190641772152 2.18979075949367 4.00194898734177 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: 1.69440414220644 Final number of output spheres is: 60 Number of polar spheres: 14 Number of nonpolar spheres: 36 Number of spheres that are near neither polar nor nonpolar receptor atoms: 10 Final number of spheres that are from crystallographic ligand: 21