usefragsph not on There are 12 ligand heavy atoms Ligand center of coords (x y z): 30.62975 1.18866666666667 -0.309833333333333 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 966 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 676 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 676 Number of spheres polar: 307, nonpolar: 300, out of current total: 676 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 20.66378 38.11969 -8.75840 11.06066 -10.24386 8.38638 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 162 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 127 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 103 Spheres center of coords (x y z): 29.4499631067961 4.92015689320388 1.00669660194175 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: 6.89933442938836 Final number of output spheres is: 45 Number of polar spheres: 22 Number of nonpolar spheres: 18 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 12