usefragsph not on There are 27 ligand heavy atoms Ligand center of coords (x y z): -31.9445555555556 3.05333333333333 19.2815925925926 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2008 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1087 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1071 Number of spheres polar: 261, nonpolar: 401, out of current total: 1071 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -41.93883 -21.95902 -6.94333 12.68000 9.29160 28.12614 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 609 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 529 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 520 Spheres center of coords (x y z): -31.9836880769231 0.606325346153846 17.1326784423077 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: 6.41101469041 Final number of output spheres is: 60 Number of polar spheres: 19 Number of nonpolar spheres: 18 Number of spheres that are near neither polar nor nonpolar receptor atoms: 23 Final number of spheres that are from crystallographic ligand: 27