View source for 7xie


==Crystal structure of a dimeric interlocked parallel G-quadruplex==
<StructureSection load='7xie' size='340' side='right'caption='[[7xie]], [[Resolution|resolution]] 1.97&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[7xie]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7XIE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7XIE FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.97&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene></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=7xie FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7xie OCA], [https://pdbe.org/7xie PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7xie RCSB], [https://www.ebi.ac.uk/pdbsum/7xie PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7xie ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
93del is a 16-nucleotide G-quadruplex-forming aptamer which can inhibit the activity of the HIV-1 integrase enzyme at nanomolar concentration. Previous structural analyses of 93del using NMR spectroscopy have shown that the aptamer forms an interlocked G-quadruplex structure in K(+) solution. Due to its exceptional stability and unique topology, 93del has been used in many different studies involving DNA G-quadruplexes, such as DNA aptamer and multimer design, as well as DNA fluorescence research. To gain further insights on the structure of this unique aptamer, we have determined several high-resolution crystal structures of 93del and its variants. While confirming the overall dimeric interlocked G-quadruplex folding topology previously determined by NMR, our results reveal important detailed structural information, particularly the formation of a water-mediated A*G*G*G*G pentad. These insights allow us to better understand the formation of various structural elements in G-quadruplexes and should be useful for designing and manipulating G-quadruplex scaffolds with desired properties.

Crystal structures of an HIV-1 integrase aptamer: Formation of a water-mediated A*G*G*G*G pentad in an interlocked G-quadruplex.,Ngo KH, Liew CW, Lattmann S, Winnerdy FR, Phan AT Biochem Biophys Res Commun. 2022 Jul 12;613:153-158. doi: , 10.1016/j.bbrc.2022.04.020. Epub 2022 Apr 10. PMID:35561583<ref>PMID:35561583</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 7xie" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: Lattmann S]]
[[Category: Liew CW]]
[[Category: Ngo KH]]
[[Category: Phan AT]]
[[Category: Winnerdy FR]]