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PDBsum entry 2o61
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Transcription/DNA
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PDB id
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2o61
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References listed in PDB file
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Key reference
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Title
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An atomic model of the interferon-Beta enhanceosome.
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Authors
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D.Panne,
T.Maniatis,
S.C.Harrison.
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Ref.
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Cell, 2007,
129,
1111-1123.
[DOI no: ]
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PubMed id
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Abstract
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Transcriptional activation of the interferon-beta (IFN-beta) gene requires
assembly of an enhanceosome containing ATF-2/c-Jun, IRF-3/IRF-7, and NFkappaB.
These factors bind cooperatively to the IFN-beta enhancer and recruit
coactivators and chromatin-remodeling proteins to the IFN-beta promoter. We
describe here a crystal structure of the DNA-binding domains of IRF-3, IRF-7,
and NFkappaB, bound to one half of the enhancer, and use a previously described
structure of the remaining half to assemble a complete picture of enhanceosome
architecture in the vicinity of the DNA. Association of eight proteins with the
enhancer creates a continuous surface for recognizing a composite DNA-binding
element. Paucity of local protein-protein contacts suggests that cooperative
occupancy of the enhancer comes from both binding-induced changes in DNA
conformation and interactions with additional components such as CBP. Contacts
with virtually every nucleotide pair account for the evolutionary invariance of
the enhancer sequence.
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Figure 2.
Figure 2. Structure of the NFκB:IRF-7:IRF-3:DNA Complex
Ribbons representation of the complex viewed (A) normal to and
(B) along the DNA helical axis. The RHR of p50 is in light blue,
and that of RelA in dark blue. IRF-7D is in yellow, and IRF-3C
in green. The two DNA strands are in gray. (C) Sequence of the
DNA duplex corresponding to the PRDI-II region of the IFN-β
enhancer (−85 to −51 nucleotides from the start site of
transcription). (D) Protein-DNA contacts of IRF-3C. (E)
Protein-DNA contacts of IRF-7D.
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Figure 3.
Figure 3. Protein-DNA Contacts
Schematic diagram of
protein-DNA contacts generated with NUCPLOT (Luscombe et al.,
1997). Residues from ATF-2 are in red, c-Jun in dark red, IRF-3A
and C in green, and IRF-7B and D in yellow. The RHR of p50 is in
light blue, and that of RelA in dark blue. The core binding
sites for each protein are indicated in the corresponding
colors. Blue lines indicate hydrogen bonds, red lines, van der
Waals contacts.
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The above figures are
reprinted
from an Open Access publication published by Cell Press:
Cell
(2007,
129,
1111-1123)
copyright 2007.
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