425d

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[[Image:425d.gif|left|200px]]<br /><applet load="425d" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="425d, resolution 2.80&Aring;" />
 
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'''5'-D(*AP*CP*CP*GP*GP*TP*AP*CP*CP*GP*GP*T)-3''''<br />
 
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==Overview==
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==5'-D(*AP*CP*CP*GP*GP*TP*AP*CP*CP*GP*GP*T)-3'==
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Transcriptional regulation in papillomaviruses depends on sequence-specific binding of the regulatory protein E2 to several sites in the viral genome. Crystal structures of bovine papillomavirus E2 DNA targets reveal a conformational variant of B-DNA characterized by a roll-induced writhe and helical repeat of 10.5 bp per turn. A comparison between the free and the protein-bound DNA demonstrates that the intrinsic structure of the DNA regions contacted directly by the protein and the deformability of the DNA region that is not contacted by the protein are critical for sequence-specific protein/DNA recognition and hence for gene-regulatory signals in the viral system. We show that the selection of dinucleotide or longer segments with appropriate conformational characteristics, when positioned at correct intervals along the DNA helix, can constitute a structural code for DNA recognition by regulatory proteins. This structural code facilitates the formation of a complementary protein-DNA interface that can be further specified by hydrogen bonds and nonpolar interactions between the protein amino acids and the DNA bases.
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<StructureSection load='425d' size='340' side='right'caption='[[425d]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[425d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=425D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=425D FirstGlance]. <br>
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425D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=425D OCA].
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.8&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=425d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=425d OCA], [https://pdbe.org/425d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=425d RCSB], [https://www.ebi.ac.uk/pdbsum/425d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=425d ProSAT]</span></td></tr>
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==Reference==
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</table>
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Structural code for DNA recognition revealed in crystal structures of papillomavirus E2-DNA targets., Rozenberg H, Rabinovich D, Frolow F, Hegde RS, Shakked Z, Proc Natl Acad Sci U S A. 1998 Dec 22;95(26):15194-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9860945 9860945]
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__TOC__
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[[Category: Protein complex]]
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</StructureSection>
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[[Category: Frolow, F.]]
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[[Category: Large Structures]]
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[[Category: Hegde, R S.]]
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[[Category: Frolow F]]
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[[Category: Rabinovich, D.]]
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[[Category: Hegde RS]]
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[[Category: Rozenberg, H.]]
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[[Category: Rabinovich D]]
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[[Category: Shakked, Z.]]
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[[Category: Rozenberg H]]
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[[Category: double helix]]
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[[Category: Shakked Z]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 19:12:06 2008''
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Current revision

5'-D(*AP*CP*CP*GP*GP*TP*AP*CP*CP*GP*GP*T)-3'

PDB ID 425d

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