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PDBsum entry 2oeh
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Transcription/DNA
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PDB id
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2oeh
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References listed in PDB file
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Key reference
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Title
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Determination of the three-Dimensional structure of the mrf2-Dna complex using paramagnetic spin labeling.
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Authors
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S.Cai,
L.Zhu,
Z.Zhang,
Y.Chen.
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Ref.
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Biochemistry, 2007,
46,
4943-4950.
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PubMed id
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Abstract
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Understanding the mechanism of protein-DNA interactions at the molecular level
is one of the main focuses in structural and molecular biological
investigations. At present, NMR spectroscopy is the only approach that can
provide atomic details of protein-DNA recognition in solution. However,
determining the structures of protein-DNA complexes using NMR spectroscopy has
been dependent on the observation of intermolecular nuclear Overhauser effects
(NOE) and their assignments, which are difficult to obtain in many cases. In
this study, we have shown that intermolecular distance constraints derived from
a single spin-label in combination with docking calculations have defined many
specific contacts of the complex between the AT-rich interaction domain (ARID)
of Mrf2 and its target DNA. Mrf2 contacts DNA mainly using the two flexible
loops, L1 and L2. While the L1 loop contacts the phosphate backbone, L2 and
several residues in the adjacent helices interact with AT base pairs in the
major groove of DNA. Despite the structural diversity in the ARID family of
DNA-binding proteins, Mrf2 maintains contacts with DNA similar to those observed
in the homologous Dri-DNA complex.
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