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Figure 3.
Figure 3. Rho RNA Binding Sites(A) Molecular surface (GRASP
[Nicholls et al., 1991]) of the Rho hexamer. Primary RNA binding
sites in the OB-fold of the N-terminal domain are colored cyan.
Secondary (C-terminal) RNA binding sites in the ATPase domain
are colored magenta. Nucleic acid bound at the primary RNA
binding sites is shown as yellow rods. View is the same as in
Figure 2B.(B) Schematic of the primary (N-terminal) RNA binding
site configuration. The N- and C-terminal domains are colored
green and red, respectively. Solid black lines represent the
positions for the single-stranded nucleic acid, which binds
across the primary RNA binding site and orients the 3′ end
toward the hole of the ring. The broken black line shows the
path needed to be traversed by nucleic acid between adjacent
binding sites.(C) Rho's secondary RNA binding site. Stereo
diagram of the Rho hexamer showing the location of the P loops
(blue), the Q loops (magenta) and the R loops (green). View is
from the “bottom,” rotated 180° from the perspective of
Figure 2B.
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