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| ==NMR structure of the I-V kissing-loop interaction of the Neurospora VS ribozyme== | | ==NMR structure of the I-V kissing-loop interaction of the Neurospora VS ribozyme== |
| <StructureSection load='2mi0' size='340' side='right' caption='[[2mi0]], [[NMR_Ensembles_of_Models | 21 NMR models]]' scene=''> | | <StructureSection load='2mi0' size='340' side='right'caption='[[2mi0]]' scene=''> |
| == Structural highlights == | | == Structural highlights == |
| <table><tr><td colspan='2'>[[2mi0]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MI0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MI0 FirstGlance]. <br> | | <table><tr><td colspan='2'>[[2mi0]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Neurospora Neurospora]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MI0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2MI0 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=2mi0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mi0 OCA], [http://pdbe.org/2mi0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2mi0 RCSB], [http://www.ebi.ac.uk/pdbsum/2mi0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2mi0 ProSAT]</span></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'>[https://proteopedia.org/fgij/fg.htm?mol=2mi0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mi0 OCA], [https://pdbe.org/2mi0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2mi0 RCSB], [https://www.ebi.ac.uk/pdbsum/2mi0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2mi0 ProSAT]</span></td></tr> |
| </table> | | </table> |
| <div style="background-color:#fffaf0;">
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| == Publication Abstract from PubMed ==
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| Substrate recognition by the Neurospora Varkud satellite ribozyme depends on the formation of a magnesium-dependent kissing-loop interaction between the stem-loop I (SLI) substrate and stem-loop V (SLV) of the catalytic domain. From mutagenesis studies, it has been established that this I/V kissing-loop interaction involves three Watson-Crick base pairs and is associated with a structural rearrangement of the SLI substrate that facilitates catalysis. Here, we report the NMR structural characterization of this I/V kissing-loop using isolated stem-loops. NMR studies were performed on different SLI/SLV complexes containing a common SLV and shiftable, preshifted, or double-stranded SLI variants. These studies confirm the presence of three Watson-Crick base pairs at the kissing-loop junction and provide evidence for the structural rearrangement of shiftable SLI variants upon SLV binding. NMR structure determination of an SLI/SLV complex demonstrates that both the SLI and SLV loops adopt U-turn structures, which facilitates intermolecular Watson-Crick base pairing. Several other interactions at the I/V interface, including base triples and base stacking, help create a continuously stacked structure. These NMR studies provide a structural basis to understand the stability of the I/V kissing-loop interaction and lead us to propose a kinetic model for substrate activation in the VS ribozyme.
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| Structural insights into substrate recognition by the neurospora varkud satellite ribozyme: importance of u-turns at the kissing-loop junction.,Bouchard P, Legault P Biochemistry. 2014 Jan 14;53(1):258-69. doi: 10.1021/bi401491g. Epub 2013 Dec 17. PMID:24325625<ref>PMID:24325625</ref>
| | ==See Also== |
| | | *[[Ribozyme 3D structures|Ribozyme 3D structures]] |
| From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| </div>
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| <div class="pdbe-citations 2mi0" style="background-color:#fffaf0;"></div>
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| == References == | |
| <references/>
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| __TOC__ | | __TOC__ |
| </StructureSection> | | </StructureSection> |
| [[Category: Bouchard, P]] | | [[Category: Large Structures]] |
| [[Category: Legault, P]]
| | [[Category: Neurospora]] |
| [[Category: Kissing-loop interaction]]
| | [[Category: Bouchard P]] |
| [[Category: Neurospora vs ribozyme]] | | [[Category: Legault P]] |
| [[Category: Nmr structural study]] | |
| [[Category: Rna]] | |
| [[Category: Substrate recognition]]
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| [[Category: U-turn]]
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