usefragsph not on There are 20 ligand heavy atoms Ligand center of coords (x y z): 30.92665 -3.3167 1.69995 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1424 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 609 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 608 Number of spheres polar: 120, nonpolar: 285, out of current total: 608 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 23.07509 40.92155 -13.28789 5.56257 -8.23743 10.74870 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 349 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 314 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 287 Spheres center of coords (x y z): 35.4375431010453 -5.43675574912892 -0.935352961672474 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: 6.30977067575223 Final number of output spheres is: 60 Number of polar spheres: 14 Number of nonpolar spheres: 37 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 20