usefragsph not on There are 35 ligand heavy atoms Ligand center of coords (x y z): 30.1696285714286 5.77157142857143 14.4440285714286 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2058 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1031 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1029 Number of spheres polar: 358, nonpolar: 405, out of current total: 1029 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 20.18170 37.20964 -4.13242 15.73641 4.46420 24.39980 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 366 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 307 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 305 Spheres center of coords (x y z): 26.5489563934426 6.56466104918033 12.8802682622951 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: 6.67649786180551 Final number of output spheres is: 45 Number of polar spheres: 16 Number of nonpolar spheres: 26 Number of spheres that are near neither polar nor nonpolar receptor atoms: 3 Final number of spheres that are from crystallographic ligand: 35