2m4p: Difference between revisions
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New page: '''Unreleased structure''' The entry 2m4p is ON HOLD Authors: Thachappilly Mukundan, V. Description: Bulges in G-quadruplexes:Broadening the definition of G-quadruplex-forming sequence... |
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The | ==Solution structure of an intramolecular propeller-type G-quadruplex containing a single bulge== | ||
<StructureSection load='2m4p' size='340' side='right'caption='[[2m4p]]' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[2m4p]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2M4P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2M4P 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=2m4p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2m4p OCA], [https://pdbe.org/2m4p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2m4p RCSB], [https://www.ebi.ac.uk/pdbsum/2m4p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2m4p ProSAT]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
We report on the first solution structure of an intramolecular G-quadruplex containing a single bulge and present evidence for extensive occurrence of bulges in different G-quadruplex contexts. The NMR solution structure of the d(TTGTGGTGGGTGGGTGGGT) sequence reveals a propeller-type parallel-stranded G-quadruplex containing three G-tetrad layers, three double-chain-reversal loops, and a bulge. All guanines participate in the formation of the G-tetrad core, despite the interruption between the first guanine and the next two guanines by a thymine, which forms a single-residue bulge and is projected out of the G-tetrad core. To provide a more general understanding about the formation of bulges within G-quadruplexes, we systematically investigated the effects of the residue type, the size, the position, and the number of bulges on the structure and stability of G-quadruplexes. The formation of bulges has also been observed in two different G-quadruplex scaffolds with different strand orientations and folding topologies. Our results show that bulges can be formed in many different situations within G-quadruplexes. While many sequences tested in this study can form stable G-quadruplex structures, all of them defy the description of sequences G3+NL1G3+NL2G3+NL3G3+, currently used in most bioinformatics searches for identifying potential G-quadruplex-forming sequences in the genomes. Broadening of this description to include the possibilities of bulge formation should allow the identification of more G-quadruplex-forming sequences which went unnoticed in the earlier searches. This study could also open the possibilities of exploiting bulges as recognition elements for interactions between G-quadruplexes and other molecules. | |||
Bulges in G-Quadruplexes: Broadening the Definition of G-Quadruplex-Forming Sequences.,Mukundan VT, Phan AT J Am Chem Soc. 2013 Mar 22. PMID:23521617<ref>PMID:23521617</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 2m4p" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Mukundan VT]] | |||
[[Category: Phan AT]] | |||
Latest revision as of 05:59, 15 May 2024
Solution structure of an intramolecular propeller-type G-quadruplex containing a single bulge
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