usefragsph not on There are 18 ligand heavy atoms Ligand center of coords (x y z): -5.37333333333333 4.40505555555556 14.3292222222222 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 700 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 453 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 446 Number of spheres polar: 100, nonpolar: 240, out of current total: 446 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -13.21155 4.33454 -5.39948 13.59960 5.66258 23.49381 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 165 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 136 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 123 Spheres center of coords (x y z): -4.88311780487805 5.60531886178862 11.5866025203252 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: 4.60536031617417 Final number of output spheres is: 45 Number of polar spheres: 11 Number of nonpolar spheres: 28 Number of spheres that are near neither polar nor nonpolar receptor atoms: 6 Final number of spheres that are from crystallographic ligand: 18