usefragsph not on There are 50 ligand heavy atoms Ligand center of coords (x y z): 32.98688 22.96468 10.75812 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2130 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1348 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1348 Number of spheres polar: 438, nonpolar: 673, out of current total: 1348 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 23.89243 42.97264 13.38780 32.96021 0.77655 20.73418 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 394 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 314 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 50 Spheres center of coords (x y z): 32.98688 22.96468 10.75812 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: 1.53889123810514 WARNING: removing a crystallographic sphere since 50>45 max spheres are present WARNING: removing a crystallographic sphere since 49>45 max spheres are present WARNING: removing a crystallographic sphere since 48>45 max spheres are present WARNING: removing a crystallographic sphere since 47>45 max spheres are present WARNING: removing a crystallographic sphere since 46>45 max spheres are present Final number of output spheres is: 45 Number of polar spheres: 5 Number of nonpolar spheres: 36 Number of spheres that are near neither polar nor nonpolar receptor atoms: 4 Final number of spheres that are from crystallographic ligand: 45