The 50S subunit of the ribosome catalyzes the peptidyl-transferase rea
ction of protein synthesis. We have generated X-ray crystallographic e
lectron density maps of the large ribosomal subunit from Haloarcula ma
rismortui at various resolutions up to 9 Angstrom using data from crys
tals that diffract to 3 Angstrom. Positioning a 20 Angstrom resolution
EM image of these particles in the crystal lattice produced phases ac
curate enough to locate the bound heavy atoms in three derivatives usi
ng difference Fourier maps, thus demonstrating the correctness of the
EM model and its placement in the unit cell. At 20 Angstrom resolution
, the X-ray map is similar to the EM map; however, at 9 Angstrom it re
veals long, continuous, but branched features whose shape, diameter, a
nd right-handed twist are consistent with segments of double-helical R
NA that crisscross the subunit.