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Fig. 7. Pax1 and Pax9 bind to regulatory sequences of the Bapx1 promoter.
(A) PIP analysis of an 8550 bp mouse Bapx1 genome sequence when
compared with an 8600 bp human BAPX1 sequence. Exons are outlined in black and
coding parts are gray. Numbers at the top indicate nucleotide positions as
defined in the text, and they correspond to 5' ends of intervals
included in the series of deletion constructs used in the transactivation
assay. The interval between -880 and -748 is outlined in green. PIP scores in
% are shown on the right, with 50% identity at the bottom level. Note the
presence of several CNS segments outside the coding region. Many of them are
located in the interval between -880 and +109. (B) Sequence of the interval
between -880 and -731. The different oligonucleotides (S1, S2, B4, B5 and S4)
employed in EMSA assays are indicated by lines. Sequence in green (-880 to
-748) corresponds to the segment included in the plasmid p0.9Bp-luc, but not
in the plasmid p0.7Bp-luc. A potential Pax6-binding site predicted by TFSEARCH
and MatInspector is in the region of S1 and indicated in red. (C-F) Results of
EMSA experiments. The indicated labeled oligonucleotides (Probe, marked with
an asterisk) were incubated with the in vitro translated protein (Prot.) Pax1,
Pax9 or luciferase as a control (C), separated and visualized as described in
the Materials and Methods. The specific Pax1 (black arrows) and Pax9 (gray
arrow in F) complexes are indicated. (C) Pax1 binds to oligonucleotide B4.
Cold oligonucleotides e5-5 or e5-3 were added at 250-fold (lanes 2, 4) or
500-fold (lanes 3, 5) molar excess, as indicated. e5-5 specifically competes
with B4 for Pax1 binding, whereas mutated e5-3 does not. (D) Specific
inhibition of Pax1-B4 complex formation by anti-Pax1 antibody. The indicated
antibodies were incubated in the binding reactions. P1, anti-Pax1 goat
antibody; C, anti-mouse goat antibody, used as control. The anti-Pax1
antibody abrogates the formation of the larger complex. (E) Competition
experiments employing a 250-fold (lanes 2, 4, 6) or 500-fold (lanes 3, 5, 7)
molar excess of cold oligonucleotides B4, S1 or S2. Note that oligonucleotides
B4 and S1 compete with B4 for Pax1 binding, whereas oligonucleotide S2 does
not. (F) Binding of Pax1 and Pax9 to oligonucleotide S1. S1 or S2 labeled
oligonucleotides were incubated with Pax1, Pax9 or luciferase control protein
as indicated. Both Pax1 and Pax9 interact with S1 oligonucleotide, but not
with S2 oligonucleotide.
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