usefragsph not on There are 33 ligand heavy atoms Ligand center of coords (x y z): 28.6644848484848 -0.00775757575757575 29.4992424242424 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2056 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 973 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 973 Number of spheres polar: 289, nonpolar: 466, out of current total: 973 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 18.67651 38.61258 -9.99636 9.89942 19.53217 39.48994 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 293 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 236 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 182 Spheres center of coords (x y z): 24.5819862637363 -1.93467593406593 30.695221978022 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: 5.40181663048643 Final number of output spheres is: 45 Number of polar spheres: 12 Number of nonpolar spheres: 27 Number of spheres that are near neither polar nor nonpolar receptor atoms: 6 Final number of spheres that are from crystallographic ligand: 33