View source for 7ywl


==Six DNA Helix Bundle nanopore - State 3==
<StructureSection load='7ywl' size='340' side='right'caption='[[7ywl]], [[Resolution|resolution]] 8.00&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[7ywl]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/DNA_molecule DNA molecule]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YWL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YWL FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 8&#8491;</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=7ywl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ywl OCA], [https://pdbe.org/7ywl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ywl RCSB], [https://www.ebi.ac.uk/pdbsum/7ywl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ywl ProSAT]</span></td></tr>
</table>
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== Publication Abstract from PubMed ==
DNA can be folded into rationally designed, unique, and functional materials. To fully realise the potential of these DNA materials, a fundamental understanding of their structure and dynamics is necessary, both in simple solvents as well as more complex and diverse anisotropic environments. Here we analyse an archetypal six-duplex DNA nanoarchitecture with single-particle cryo-electron microscopy and molecular dynamics simulations in solvents of tunable ionic strength and within the anisotropic environment of biological membranes. Outside lipid bilayers, the six-duplex bundle lacks the designed symmetrical barrel-type architecture. Rather, duplexes are arranged in non-hexagonal fashion and are disorted to form a wider, less elongated structure. Insertion into lipid membranes, however, restores the anticipated barrel shape due to lateral duplex compression by the bilayer. The salt concentration has a drastic impact on the stability of the inserted barrel-shaped DNA nanopore given the tunable electrostatic repulsion between the negatively charged duplexes. By synergistically combining experiments and simulations, we increase fundamental understanding into the environment-dependent structural dynamics of a widely used nanoarchitecture. This insight will pave the way for future engineering and biosensing applications.

Structure and dynamics of an archetypal DNA nanoarchitecture revealed via cryo-EM and molecular dynamics simulations.,Ahmad K, Javed A, Lanphere C, Coveney PV, Orlova EV, Howorka S Nat Commun. 2023 Jun 19;14(1):3630. doi: 10.1038/s41467-023-38681-5. PMID:37336895<ref>PMID:37336895</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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== References ==
<references/>
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</StructureSection>
[[Category: DNA molecule]]
[[Category: Large Structures]]
[[Category: Ahmad K]]
[[Category: Coveney P]]
[[Category: Howorka S]]
[[Category: Javed A]]
[[Category: Lanphere C]]
[[Category: Orlova EV]]