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Figure 6.
Figure 6. Comparison of the Structure of the RAP1 DBD with
the Engrailed Homeodomain and Myb(a) Superposition of domain 1
(pale green) with domain 2 (orange) of RAP1 in a view along the
recognition helices. The structures were overlaid using the
protein alone. The corresponding DNA sites are shown in blue for
domain 1 and cyan for domain 2. The C-terminal region of domain
1 is omitted for clarity.(b) Superposition of the Engrailed
homeodomain (white) with domain 1 of RAP1 (pale green). The
structural similarity includes the three-helix bundle and the
N-terminal arm (domain 1 of RAP1, residues 360–378, 387–396,
and 398–409; Engrailed, residues 5–23, 30–39, and 40–51,
numbered according to pdb entry 1hdd). The DNA sites (RAP1,
blue; Engrailed, white) are shown to illustrate the
different docking of the domains on DNA.(c) Superposition of the
second repeat of the proto-oncogene Myb (magenta) with domain 1
of RAP1 (pale green). The structural similarity extends over the
three-helix bundles (domain 1 of RAP1, residues 363–378 and
387–409; Myb, residues 94–100 and 114–136, numbered
according to pdb, entry 1 mse). The view is rotated by 90°
about the DNA axis with respect to (a) and (b) to illustrate the
different position of the recognition helices in the major
groove of their DNA sites (RAP1, blue; Myb, magenta).
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