View source for 6zte


==Structure of a parallel c-myc modified with 5' duplex stem-loop and 3' diagonal snap-back loop==
<StructureSection load='6zte' size='340' side='right'caption='[[6zte]], [[NMR_Ensembles_of_Models | 10 NMR models]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6zte]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZTE OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZTE FirstGlance]. <br>
</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6zte FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zte OCA], [http://pdbe.org/6zte PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zte RCSB], [http://www.ebi.ac.uk/pdbsum/6zte PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zte ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
A parallel quadruplex derived from the Myc promoter sequence was extended by a stem-loop duplex at either its 5'- or 3'-terminus to mimic a quadruplex-duplex (Q-D) junction as a potential genomic target. High-resolution structures of the hybrids demonstrate continuous stacking of the duplex on the quadruplex core without significant perturbations. An indoloquinoline ligand carrying an aminoalkyl sidechain was shown to bind the Q-D hybrids with a very high affinity in the order K a ~ 10 7 M -1 irrespective of the duplex location at the quadruplex 3'- or 5'-end. NMR chemical shift perturbations identified the tetrad face of the Q-D junction as specific binding site for the ligand. However, calorimetric analyses revealed significant differences in the thermodynamic profiles upon binding to hybrids with either a duplex extension at the quadruplex 3'- or 5'-terminus. A large enthalpic gain and considerable hydrophobic effects are accompanied by the binding of one ligand to the 3'-Q-D junction, whereas non-hydrophobic entropic contributions favor binding with formation of a 2:1 ligand-quadruplex complex in case of the 5'-Q-D hybrid.

Quadruplex-Duplex Junction: A High-Affinity Binding Site for Indoloquinoline Ligands.,Vianney YM, Preckwinkel P, Mohr S, Weisz K Chemistry. 2020 Sep 25. doi: 10.1002/chem.202003540. PMID:32975874<ref>PMID:32975874</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6zte" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Vianney, Y M]]
[[Category: Weisz, K]]
[[Category: Dna]]
[[Category: Duplex]]
[[Category: G-quadruplex]]
[[Category: Quadruplex-duplex junction]]