usefragsph not on There are 54 ligand heavy atoms Ligand center of coords (x y z): -9.16412962962963 15.9127037037037 27.8320740740741 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1195 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 686 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 686 Number of spheres polar: 139, nonpolar: 401, out of current total: 686 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -18.79961 0.80697 5.93200 25.85508 17.58700 38.16500 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 394 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 353 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 338 Spheres center of coords (x y z): -8.46962952662722 14.7319331952663 27.8261762721894 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: 4.09903324906878 Final number of output spheres is: 60 Number of polar spheres: 18 Number of nonpolar spheres: 35 Number of spheres that are near neither polar nor nonpolar receptor atoms: 7 Final number of spheres that are from crystallographic ligand: 54