usefragsph not on There are 29 ligand heavy atoms Ligand center of coords (x y z): 42.7818965517241 0.81948275862069 14.2153103448276 Using crystallographic ligand as spheres for output Starting number of spheres from sph/sph cluster 0: 1397 FINISHED READING IN FILE sph/sph CLUSTER 0 Number of sphere points after cutting off spheres too far from center of ligand (10 angstroms): 843 Number of spheres after removing too far (>7 angstroms) and too close to receptor (<1.2 angstroms): 841 Number of spheres polar: 297, nonpolar: 319, out of current total: 841 Extents of grid to search are X1 X2 Y1 Y2 Z1 Z2: 32.78921 52.76163 -9.17530 10.80955 4.26873 24.21443 Number of spheres after removing spheres too close to each other (approximately <1.5 angstroms): 284 Number of spheres after second pass removing spheres absolutely <0.8 from each other: 229 Crystallographic spheres are present, so doing continuity based on crystallographic spheres After continuity checking, number of spheres is: 221 Spheres center of coords (x y z): 45.1327966515837 -2.11732117647059 14.5273398190045 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: 6.03860903986874 Final number of output spheres is: 45 Number of polar spheres: 15 Number of nonpolar spheres: 21 Number of spheres that are near neither polar nor nonpolar receptor atoms: 9 Final number of spheres that are from crystallographic ligand: 29