usefragsph not on There are 23 ligand heavy atoms Ligand center of coords (x y z): 28.5522608695652 -4.58808695652174 2.68191304347826 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1429 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 682 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 682 Number of spheres polar: 141, nonpolar: 334, out of current total: 682 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 18.66220 38.34494 -14.56795 4.38192 -7.30789 12.53646 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 389 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 347 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 339 Spheres center of coords (x y z): 31.7818996755162 -7.25267433628318 2.20786510324484 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: 6.10035166721002 Final number of output spheres is: 60 Number of polar spheres: 23 Number of nonpolar spheres: 32 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 23