usefragsph not on There are 21 ligand heavy atoms Ligand center of coords (x y z): 27.2772857142857 2.12180952380952 4.389 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 992 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 337 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 337 Number of spheres polar: 114, nonpolar: 185, out of current total: 337 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 18.35961 37.16497 -4.14684 11.93742 -5.56191 14.32985 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 160 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 135 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 117 Spheres center of coords (x y z): 26.4057318803419 3.54791230769231 5.23285675213675 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: 3.21486644600364 Final number of output spheres is: 60 Number of polar spheres: 18 Number of nonpolar spheres: 32 Number of spheres that are near neither polar nor nonpolar receptor atoms: 10 Final number of spheres that are from crystallographic ligand: 21