7xhd: Difference between revisions
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==Crystal structure of a dimeric interlocked parallel G-quadruplex== | |||
<StructureSection load='7xhd' size='340' side='right'caption='[[7xhd]], [[Resolution|resolution]] 1.66Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[7xhd]] 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=7XHD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7XHD 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]] 1.66Å</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=7xhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7xhd OCA], [https://pdbe.org/7xhd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7xhd RCSB], [https://www.ebi.ac.uk/pdbsum/7xhd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7xhd 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®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
[[Category: | <div class="pdbe-citations 7xhd" style="background-color:#fffaf0;"></div> | ||
[[Category: Liew | == References == | ||
[[Category: | <references/> | ||
[[Category: Phan | __TOC__ | ||
[[Category: Winnerdy | </StructureSection> | ||
[[Category: Large Structures]] | |||
[[Category: Synthetic construct]] | |||
[[Category: Lattmann S]] | |||
[[Category: Liew CW]] | |||
[[Category: Ngo KH]] | |||
[[Category: Phan AT]] | |||
[[Category: Winnerdy FR]] | |||
