8s1w
From Proteopedia
(Difference between revisions)
(New page: '''Unreleased structure''' The entry 8s1w is ON HOLD Authors: Vianney, Y.M., Jana, J., Weisz, K. Description: Structure of a quadruplex-duplex hybrid with a (-pd+l) loop progression [[...) |
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| - | '''Unreleased structure''' | ||
| - | + | ==Structure of a quadruplex-duplex hybrid with a (-pd+l) loop progression== | |
| + | <StructureSection load='8s1w' size='340' side='right'caption='[[8s1w]]' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[8s1w]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8S1W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8S1W 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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGM:8-BROMO-2-DEOXYGUANOSINE-5-MONOPHOSPHATE'>BGM</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=8s1w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8s1w OCA], [https://pdbe.org/8s1w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8s1w RCSB], [https://www.ebi.ac.uk/pdbsum/8s1w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8s1w ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | A guanine-rich oligonucleotide based on a human telomeric sequence but with the first three-nucleotide intervening stretch replaced by a putative 15-nucleotide hairpin-forming sequence shows a pH-dependent folding into different quadruplex-duplex hybrids in a potassium containing buffer. At slightly acidic pH, the quadruplex domain adopts a chair-type conformation. Upon increasing the pH, a transition with a midpoint close to neutral pH to a major and minor (3+1) hybrid topology with either a coaxially stacked or orthogonally oriented duplex stem-loop occurs. NMR-derived high-resolution structures reveal that an adenine protonation is prerequisite for the formation of a non-canonical base quartet, capping the outer G-tetrad at the quadruplex-duplex interface and stabilizing the antiparallel chair conformation in an acidic environment. Being directly associated with interactions at the quadruplex-duplex interface, this unique pH-dependent topological transition is fully reversible. Coupled with a conformation-sensitive optical readout demonstrated as a proof of concept using the fluorescent dye thiazole orange, the present quadruplex-duplex hybrid architecture represents a potentially valuable pH-sensing system responsive in a physiological pH range of 7+/-1. | ||
| - | + | A pH-Responsive Topological Switch Based on a DNA Quadruplex-Duplex Hybrid.,Vianney YM, Jana J, Weisz K Chemistry. 2024 May 23;30(29):e202400722. doi: 10.1002/chem.202400722. Epub 2024 , Apr 9. PMID:38497675<ref>PMID:38497675</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | [[Category: | + | </div> |
| - | [[Category: Jana | + | <div class="pdbe-citations 8s1w" style="background-color:#fffaf0;"></div> |
| - | [[Category: Vianney | + | == References == |
| - | [[Category: Weisz | + | <references/> |
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Synthetic construct]] | ||
| + | [[Category: Jana J]] | ||
| + | [[Category: Vianney YM]] | ||
| + | [[Category: Weisz K]] | ||
Current revision
Structure of a quadruplex-duplex hybrid with a (-pd+l) loop progression
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