usefragsph not on There are 30 ligand heavy atoms Ligand center of coords (x y z): 17.0428666666667 -12.5810333333333 22.7051 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1228 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 741 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 738 Number of spheres polar: 275, nonpolar: 263, out of current total: 738 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 7.79698 27.01010 -22.28534 -2.76530 12.85452 32.55565 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 380 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 326 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 302 Spheres center of coords (x y z): 17.5114035430464 -15.2383804635762 23.038236192053 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: 5.86388417394528 Final number of output spheres is: 60 Number of polar spheres: 23 Number of nonpolar spheres: 26 Number of spheres that are near neither polar nor nonpolar receptor atoms: 11 Final number of spheres that are from crystallographic ligand: 30