usefragsph not on There are 35 ligand heavy atoms Ligand center of coords (x y z): -9.04994285714286 49.4809142857143 51.3425142857143 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2643 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1061 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1060 Number of spheres polar: 237, nonpolar: 599, out of current total: 1060 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -18.87410 0.89206 39.56748 59.44685 41.35186 61.33466 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 615 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 524 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 497 Spheres center of coords (x y z): -9.26467625754527 47.0304648088531 52.5172478068411 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: 6.20406307601033 Final number of output spheres is: 60 Number of polar spheres: 24 Number of nonpolar spheres: 31 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 35