usefragsph not on There are 27 ligand heavy atoms Ligand center of coords (x y z): 8.14544444444444 2.11462962962963 25.144962962963 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1934 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 1109 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 1109 Number of spheres polar: 423, nonpolar: 440, out of current total: 1109 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -1.81645 17.09134 -7.40074 12.09938 15.26608 35.14187 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 330 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 266 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 244 Spheres center of coords (x y z): 5.24377836065574 1.68344614754098 26.6327637704918 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: 5.9390845059238 Final number of output spheres is: 45 Number of polar spheres: 6 Number of nonpolar spheres: 19 Number of spheres that are near neither polar nor nonpolar receptor atoms: 20 Final number of spheres that are from crystallographic ligand: 27