usefragsph not on There are 34 ligand heavy atoms Ligand center of coords (x y z): 27.9838529411765 9.72105882352941 16.0667352941176 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 2679 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1069 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1069 Number of spheres polar: 281, nonpolar: 449, out of current total: 1069 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 18.00184 37.93022 -0.26891 19.70681 6.21625 26.05142 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 646 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 549 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 514 Spheres center of coords (x y z): 25.4721721595331 11.1728438326848 19.3674849610895 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: 6.51720331214125 Final number of output spheres is: 60 Number of polar spheres: 11 Number of nonpolar spheres: 30 Number of spheres that are near neither polar nor nonpolar receptor atoms: 19 Final number of spheres that are from crystallographic ligand: 34