usefragsph not on There are 19 ligand heavy atoms Ligand center of coords (x y z): -12.5127368421053 6.37589473684211 -22.2741578947368 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 542 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 326 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 325 Number of spheres polar: 73, nonpolar: 202, out of current total: 325 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -20.20008 -6.58578 -3.52121 16.26244 -32.20140 -13.33977 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 183 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 152 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 139 Spheres center of coords (x y z): -11.0167161151079 5.47660669064748 -21.8107114388489 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: 4.97484909110828 Final number of output spheres is: 60 Number of polar spheres: 9 Number of nonpolar spheres: 42 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 19