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==NMR structure of the II-III-VI three-way junction from the VS ribozyme and identification of magnesium-binding sites using paramagnetic relaxation enhancement==
==NMR structure of the II-III-VI three-way junction from the VS ribozyme and identification of magnesium-binding sites using paramagnetic relaxation enhancement==
<StructureSection load='2n3r' size='340' side='right'caption='[[2n3r]], [[NMR_Ensembles_of_Models | 21 NMR models]]' scene=''>
<StructureSection load='2n3r' size='340' side='right'caption='[[2n3r]]' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[2n3r]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N3R OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2N3R FirstGlance]. <br>
<table><tr><td colspan='2'>[[2n3r]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Neurospora_crassa Neurospora crassa]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2N3R FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
</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'>[http://proteopedia.org/fgij/fg.htm?mol=2n3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n3r OCA], [http://pdbe.org/2n3r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n3r RCSB], [http://www.ebi.ac.uk/pdbsum/2n3r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2n3r ProSAT]</span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=2n3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n3r OCA], [https://pdbe.org/2n3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2n3r RCSB], [https://www.ebi.ac.uk/pdbsum/2n3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2n3r ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
As part of an effort to structurally characterize the complete Neurospora VS ribozyme, NMR solution structures of several subdomains have been previously determined, including the internal loops of domains I and VI, the I/V kissing-loop interaction and the III-IV-V junction. Here, we expand this work by determining the NMR structure of a 62-nucleotide RNA (J236) that encompasses the VS ribozyme II-III-VI three-way junction and its adjoining stems. In addition, we localize Mg2+-binding sites within this structure using Mn2+-induced paramagnetic relaxation enhancement. The NMR structure of the J236 RNA displays a family C topology with a compact core stabilized by continuous stacking of stems II and III, a cis WC/WC G*A base pair, two base triples and two Mg2+ ions. Moreover, it reveals a remote tertiary interaction between the adenine bulges of stems II and VI. Additional NMR studies demonstrate that both this bulge-bulge interaction and Mg2+ ions are critical for the stable folding of the II-III-VI junction. The NMR structure of the J236 RNA is consistent with biochemical studies on the complete VS ribozyme, but not with biophysical studies performed with a minimal II-III-VI junction that does not contain the II-VI bulge-bulge interaction. Together with previous NMR studies, our findings provide important new insights into the three-dimensional architecture of this unique ribozyme.


The NMR structure of the II-III-VI three-way junction from the Neurospora VS ribozyme reveals a critical tertiary interaction and provides new insights into the global ribozyme structure.,Bonneau E, Girard N, Lemieux S, Legault P RNA. 2015 Jun 29. PMID:26124200<ref>PMID:26124200</ref>
==See Also==
 
*[[Ribozyme 3D structures|Ribozyme 3D structures]]
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2n3r" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Bonneau, E]]
[[Category: Neurospora crassa]]
[[Category: Girard, N]]
[[Category: Bonneau E]]
[[Category: Legault, P]]
[[Category: Girard N]]
[[Category: Lemieux, S]]
[[Category: Legault P]]
[[Category: Catalysis]]
[[Category: Lemieux S]]
[[Category: Mg2+ ion]]
[[Category: Rna]]
[[Category: Vs ribozyme]]

Latest revision as of 10:03, 1 May 2024

NMR structure of the II-III-VI three-way junction from the VS ribozyme and identification of magnesium-binding sites using paramagnetic relaxation enhancementNMR structure of the II-III-VI three-way junction from the VS ribozyme and identification of magnesium-binding sites using paramagnetic relaxation enhancement

Structural highlights

2n3r is a 1 chain structure with sequence from Neurospora crassa. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:Solution NMR
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

See Also

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