usefragsph not on There are 40 ligand heavy atoms Ligand center of coords (x y z): -9.4474 16.402975 27.910925 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1284 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 633 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 633 Number of spheres polar: 91, nonpolar: 365, out of current total: 633 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -19.19957 0.45012 6.41276 25.97900 17.91446 37.87549 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 376 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 320 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 309 Spheres center of coords (x y z): -8.62519388349514 15.2136471521036 27.9230937864078 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: 4.46462485276921 Final number of output spheres is: 60 Number of polar spheres: 12 Number of nonpolar spheres: 34 Number of spheres that are near neither polar nor nonpolar receptor atoms: 14 Final number of spheres that are from crystallographic ligand: 40