View source for 1zyf


==Structure of a Supercoiling Responsive DNA Site==
<StructureSection load='1zyf' size='340' side='right'caption='[[1zyf]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1zyf]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZYF FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1zyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zyf OCA], [https://pdbe.org/1zyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zyf RCSB], [https://www.ebi.ac.uk/pdbsum/1zyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zyf ProSAT]</span></td></tr>
</table>
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== Publication Abstract from PubMed ==
In both eukaryotes and prokaryotes, negative supercoiling of chromosomal DNA acts locally to regulate a variety of cellular processes, such as transcription, replication, recombination and response to environmental stresses. While studying the interaction between the Hin recombinase and mutated versions of its cognate DNA-binding site, we identified a mutated DNA site that binds Hin only when the DNA is supercoiled. To understand the mechanism of this supercoiling-responsive DNA site, we used NMR spectroscopy and fluorescence resonance energy transfer to determine the solution structures and dynamics of three related DNA oligonucleotides. The supercoiling-responsive DNA site formed a partially unwound and stretched helix and showed significant flexibility and base pair opening kinetics. The single CAG/CTG triplet contained in this DNA sequence displayed the same characteristics as do multiple CAG/CTG repeats, which are associated with several hereditary neuromuscular diseases. It is known that short DNA sequence motifs that have either very high or low bending flexibility occur preferentially at supercoiling-sensitive bacterial and eukaryotic promoters. From our results and these previous data, we propose a model in which supercoiling utilizes the intrinsic flexibility of a short DNA site to switch the local DNA structure from an inefficient conformation for protein binding to an efficient one, or vice versa.

Structural and dynamic basis of a supercoiling-responsive DNA element.,Bae SH, Yun SH, Sun D, Lim HM, Choi BS Nucleic Acids Res. 2006 Jan 9;34(1):254-61. Print 2006. PMID:16414956<ref>PMID:16414956</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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== References ==
<references/>
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</StructureSection>
[[Category: Large Structures]]
[[Category: Bae SH]]
[[Category: Choi BS]]
[[Category: Lim HM]]
[[Category: Sun D]]
[[Category: Yun SH]]