usefragsph not on There are 36 ligand heavy atoms Ligand center of coords (x y z): -15.0524444444444 7.99486111111111 45.3485555555556 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1692 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1016 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1016 Number of spheres polar: 253, nonpolar: 445, out of current total: 1016 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -24.98806 -5.05722 -1.93098 17.90431 36.49822 55.33939 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 561 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 488 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 475 Spheres center of coords (x y z): -13.0059574105263 7.26530427368422 47.9787990105263 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: 5.90959683850495 Final number of output spheres is: 60 Number of polar spheres: 25 Number of nonpolar spheres: 30 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 36