NMR has been used to examine the conformational
properties of two variants of the sarcin-ricin loop (SRL)
from eukaryotic 28S rRNA, which is essential for elongation
factor interactions with the ribosome: (1) its bacterial
homologue, which lacks two of the bases that flank the
conserved 12-nt sequence in the middle of the SRL, but
which is functionally equivalent, and (2) a functionally
active variant of the eukaryotic SRL in which the bulged
G within the conserved sequence is replaced by an A. The
data indicate that, although the bacterial SRL is less
stable than the eukaryotic SRL, its conformation is closely
similar. Furthermore, even though replacement of the bulged
G in the SRL with an A seriously destabilizes the center
of the loop, its effect on the overall conformation of
the SRL appears to be modest. In the course of this work,
it was serendipitously discovered that at neutral pH, the
C8 proton of the bulged G, in both PRO-SRL and E73, exchanges
about 10 times faster than it does in GMP.