View source for 5nxt


==Wobble base paired RNA double helix==
<StructureSection load='5nxt' size='340' side='right'caption='[[5nxt]], [[Resolution|resolution]] 1.38&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5nxt]] is a 1 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=5NXT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NXT 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]] 1.379&#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=5nxt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nxt OCA], [https://pdbe.org/5nxt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nxt RCSB], [https://www.ebi.ac.uk/pdbsum/5nxt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nxt ProSAT]</span></td></tr>
</table>
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== Publication Abstract from PubMed ==
Wobble base pairs are critical in various physiological functions and have been linked to local structural perturbations in double helical structures of nucleic acids. We report a 1.38-A resolution crystal structure of an antiparallel octadecamer RNA double helix in overall A conformation, which includes a unique, central stretch of six consecutive wobble base pairs (W helix) with two G.U and four rare C.A(+) wobble pairs. Four adenines within the W helix are N1-protonated and wobble-base-paired with the opposing cytosine through two regular hydrogen bonds. Combined with the two G.U pairs, the C.A(+) base pairs facilitate formation of a half turn of W-helical RNA flanked by six regular Watson-Crick base pairs in standard A conformation on either side. RNA melting experiments monitored by differential scanning calorimetry, UV and circular dichroism spectroscopy demonstrate that the RNA octadecamer undergoes a pH-induced structural transition which is consistent with the presence of a duplex with C.A(+) base pairs at acidic pH. Our crystal structure provides a first glimpse of an RNA double helix based entirely on wobble base pairs with possible applications in RNA or DNA nanotechnology and pH biosensors.

A Novel Form of RNA Double Helix Based on G.U and C.A(+) Wobble Base Pairing.,Garg A, Heinemann U RNA. 2017 Nov 9. pii: rna.064048.117. doi: 10.1261/rna.064048.117. PMID:29122970<ref>PMID:29122970</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<div class="pdbe-citations 5nxt" style="background-color:#fffaf0;"></div>
== References ==
<references/>
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</StructureSection>
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: Garg A]]
[[Category: Heinemann U]]