5nxt: Difference between revisions

Line 1:

~~'''Unreleased structure'''~~

~~The entry~~ 5nxt is ~~ON HOLD until Paper~~ Publication

==Wobble base paired RNA double helix==

== Structural highlights ==

<table><tr><td colspan='2'>[[5nxt]] is a 1 chain structure. 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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NXT FirstGlance]. <br>

</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5nxt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nxt OCA], [http://pdbe.org/5nxt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nxt RCSB], [http://www.ebi.ac.uk/pdbsum/5nxt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nxt ProSAT]</span></td></tr>

</table>

== 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.

~~Authors~~:

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>

~~Description~~:

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

[[Category: ~~Unreleased Structures~~]]

</div>

== References ==

__TOC__

</StructureSection>

[[Category: Garg, A]]

[[Category: Heinemann, U]]

[[Category: Double helix]]

[[Category: N1-adenine protonation]]

[[Category: Rna]]

[[Category: Wobble pair]]

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5nxt is ON HOLD  until Paper Publication
+==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. 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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NXT FirstGlance]. <br>
+</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5nxt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nxt OCA], [http://pdbe.org/5nxt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nxt RCSB], [http://www.ebi.ac.uk/pdbsum/5nxt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nxt ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== 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.
-Authors:
+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>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 5nxt" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Garg, A]]
+[[Category: Heinemann, U]]
+[[Category: Double helix]]
+[[Category: N1-adenine protonation]]
+[[Category: Rna]]
+[[Category: Wobble pair]]