usefragsph not on There are 42 ligand heavy atoms Ligand center of coords (x y z): -9.41164285714285 16.3095238095238 27.9445952380952 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1174 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 649 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 649 Number of spheres polar: 108, nonpolar: 338, out of current total: 649 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: -19.32419 0.57450 6.31956 25.49474 18.03553 37.92229 Number of spheres after removing spheres too close to each other (approximately <1.0 angstroms): 399 Number of spheres after second pass removing spheres absolutely <0.5 from each other: 344 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 316 Spheres center of coords (x y z): -9.67896449367089 14.9355704113924 28.5483977848101 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: 4.21452525898428 Final number of output spheres is: 60 Number of polar spheres: 15 Number of nonpolar spheres: 34 Number of spheres that are near neither polar nor nonpolar receptor atoms: 11 Final number of spheres that are from crystallographic ligand: 42