usefragsph not on There are 29 ligand heavy atoms Ligand center of coords (x y z): 31.5745517241379 -1.59037931034483 25.5994827586207 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1772 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 758 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 758 Number of spheres polar: 187, nonpolar: 402, out of current total: 758 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 21.58606 41.55777 -11.58112 8.39407 15.63198 35.56005 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 280 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 238 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 190 Spheres center of coords (x y z): 33.9915265263158 -3.46192842105263 20.7488526842105 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: 5.64075020201432 Final number of output spheres is: 45 Number of polar spheres: 14 Number of nonpolar spheres: 27 Number of spheres that are near neither polar nor nonpolar receptor atoms: 4 Final number of spheres that are from crystallographic ligand: 29