usefragsph not on There are 35 ligand heavy atoms Ligand center of coords (x y z): -6.77694285714286 69.0911428571428 34.1821428571429 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1562 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 946 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 946 Number of spheres polar: 280, nonpolar: 517, out of current total: 946 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -16.73847 3.21331 59.11826 79.07283 24.19348 43.71428 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 482 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 415 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 386 Spheres center of coords (x y z): -8.31457867875648 67.4271231088083 34.0812464507772 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: 5.38927085274976 Final number of output spheres is: 60 Number of polar spheres: 17 Number of nonpolar spheres: 38 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 35