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| <StructureSection load='6d3p' size='340' side='right'caption='[[6d3p]], [[Resolution|resolution]] 2.90Å' scene=''> | | <StructureSection load='6d3p' size='340' side='right'caption='[[6d3p]], [[Resolution|resolution]] 2.90Å' scene=''> |
| == Structural highlights == | | == Structural highlights == |
| <table><tr><td colspan='2'>[[6d3p]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6D3P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6D3P FirstGlance]. <br> | | <table><tr><td colspan='2'>[[6d3p]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Sweet_clover_necrotic_mosaic_virus Sweet clover necrotic mosaic virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6D3P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6D3P FirstGlance]. <br> |
| </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IRI:IRIDIUM+HEXAMMINE+ION'>IRI</scene></td></tr> | | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9Å</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=6d3p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6d3p OCA], [http://pdbe.org/6d3p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6d3p RCSB], [http://www.ebi.ac.uk/pdbsum/6d3p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6d3p ProSAT]</span></td></tr> | | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IRI:IRIDIUM+HEXAMMINE+ION'>IRI</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=6d3p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6d3p OCA], [https://pdbe.org/6d3p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6d3p RCSB], [https://www.ebi.ac.uk/pdbsum/6d3p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6d3p ProSAT]</span></td></tr> |
| </table> | | </table> |
| <div style="background-color:#fffaf0;">
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| == Publication Abstract from PubMed ==
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| Folded RNA elements that block processive 5' --> 3' cellular exoribonucleases (xrRNAs) to produce biologically active viral noncoding RNAs have been discovered in flaviviruses, potentially revealing a new mode of RNA maturation. However, whether this RNA structure-dependent mechanism exists elsewhere and, if so, whether a singular RNA fold is required, have been unclear. Here we demonstrate the existence of authentic RNA structure-dependent xrRNAs in dianthoviruses, plant-infecting viruses unrelated to animal-infecting flaviviruses. These xrRNAs have no sequence similarity to known xrRNAs; thus, we used a combination of biochemistry and virology to characterize their sequence requirements and mechanism of stopping exoribonucleases. By solving the structure of a dianthovirus xrRNA by X-ray crystallography, we reveal a complex fold that is very different from that of the flavivirus xrRNAs. However, both versions of xrRNAs contain a unique topological feature, a pseudoknot that creates a protective ring around the 5' end of the RNA structure; this may be a defining structural feature of xrRNAs. Single-molecule FRET experiments reveal that the dianthovirus xrRNAs undergo conformational changes and can use "codegradational remodeling," exploiting the exoribonucleases' degradation-linked helicase activity to help form their resistant structure; such a mechanism has not previously been reported. Convergent evolution has created RNA structure-dependent exoribonuclease resistance in different contexts, which establishes it as a general RNA maturation mechanism and defines xrRNAs as an authentic functional class of RNAs.
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| A folded viral noncoding RNA blocks host cell exoribonucleases through a conformationally dynamic RNA structure.,Steckelberg AL, Akiyama BM, Costantino DA, Sit TL, Nix JC, Kieft JS Proc Natl Acad Sci U S A. 2018 Jun 4. pii: 1802429115. doi:, 10.1073/pnas.1802429115. PMID:29866852<ref>PMID:29866852</ref>
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| 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 6d3p" style="background-color:#fffaf0;"></div>
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| == References ==
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| <references/>
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| __TOC__ | | __TOC__ |
| </StructureSection> | | </StructureSection> |
| [[Category: Large Structures]] | | [[Category: Large Structures]] |
| [[Category: Akiyama, B M]] | | [[Category: Sweet clover necrotic mosaic virus]] |
| [[Category: Costantino, D A]] | | [[Category: Akiyama BM]] |
| [[Category: Kieft, J S]] | | [[Category: Costantino DA]] |
| [[Category: Nix, J C]] | | [[Category: Kieft JS]] |
| [[Category: Sit, T L]] | | [[Category: Nix JC]] |
| [[Category: Steckelberg, A L]] | | [[Category: Sit TL]] |
| [[Category: Exoribonuclease resistance]]
| | [[Category: Steckelberg A-L]] |
| [[Category: Rna]]
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| [[Category: Rna maturation]]
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| [[Category: Viral non-coding rna]]
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