Beginning with the framework that has been developed
for the assembly of the 30 S ribosomal subunit, we have
identified a series of RNAs that are minimal binding sites
for proteins S15, S6, S18, and S11 in the central domain
from Thermus thermophilus. The minimal binding
RNA for proteins S15, S6, and S18 consists of helix 22
and three-way junctions at both ends composed of portions
of helices 20, 21, and 23. Addition of the remaining portion
of helix 23 to this construct results in the minimal site
for S11. Surprisingly, almost half of the central domain
(helices 24, 25, and 26) is dispensable for binding the
central domain proteins. Thus, at least two classes of
RNA elements can be identified in ribosomal RNA. A protein-binding
core element (such as helices 20, 21, 22, and 23) is required
for the association of ribosomal proteins, whereas secondary
binding elements (such as helices 24, 25, and 26) associate
only with the preformed core RNP complex. Apparently, there
may be a hierarchy of ribosomal RNA elements similar to
the hierarchy of primary, secondary, and tertiary binding
ribosomal proteins.