usefragsph not on There are 33 ligand heavy atoms Ligand center of coords (x y z): 33.4769696969697 42.7142121212121 7.27448484848485 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1122 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 770 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 770 Number of spheres polar: 169, nonpolar: 453, out of current total: 770 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 24.05953 43.30505 33.13000 52.00806 -2.65881 16.93823 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 380 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 333 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 321 Spheres center of coords (x y z): 35.6002300623053 42.6449730218068 6.4599307165109 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: 4.89162603989148 Final number of output spheres is: 60 Number of polar spheres: 16 Number of nonpolar spheres: 39 Number of spheres that are near neither polar nor nonpolar receptor atoms: 5 Final number of spheres that are from crystallographic ligand: 33