usefragsph not on There are 29 ligand heavy atoms Ligand center of coords (x y z): 32.0753103448276 6.87206896551724 60.6364827586207 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1671 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 722 WARNING: removing a crystallographic sphere that is distance 0.955415093035484 angstroms from closest receptor atom Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 706 Number of spheres polar: 278, nonpolar: 250, out of current total: 706 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 22.29928 42.06997 -3.11349 16.62761 50.67150 67.82268 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 389 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 349 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 345 Spheres center of coords (x y z): 33.6004206956522 5.66146936231884 59.072585884058 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: 5.70938633325451 Final number of output spheres is: 60 Number of polar spheres: 33 Number of nonpolar spheres: 18 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 28