usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 35.3489523809524 36.124380952381 31.7642380952381 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 826 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 544 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 533 Number of spheres polar: 256, nonpolar: 167, out of current total: 533 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 26.50492 45.32539 26.13982 45.94125 21.77272 41.55655 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 294 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 258 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 213 Spheres center of coords (x y z): 35.8542044600939 38.3115963849765 30.8925469483568 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: 6.1889015841633 Final number of output spheres is: 60 Number of polar spheres: 38 Number of nonpolar spheres: 14 Number of spheres that are near neither polar nor nonpolar receptor atoms: 8 Final number of spheres that are from crystallographic ligand: 21