1rpu
From Proteopedia
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==Crystal Structure of CIRV p19 bound to siRNA== | ==Crystal Structure of CIRV p19 bound to siRNA== | ||
| - | <StructureSection load='1rpu' size='340' side='right' caption='[[1rpu]], [[Resolution|resolution]] 2.50Å' scene=''> | + | <StructureSection load='1rpu' size='340' side='right'caption='[[1rpu]], [[Resolution|resolution]] 2.50Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[1rpu]] is a 4 chain structure with sequence from [ | + | <table><tr><td colspan='2'>[[1rpu]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Carnation_Italian_ringspot_virus Carnation Italian ringspot virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RPU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RPU FirstGlance]. <br> |
| - | </td></tr><tr id=' | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5Å</td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1rpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rpu OCA], [https://pdbe.org/1rpu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rpu RCSB], [https://www.ebi.ac.uk/pdbsum/1rpu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rpu ProSAT]</span></td></tr> |
</table> | </table> | ||
== Function == | == Function == | ||
| - | [ | + | [https://www.uniprot.org/uniprot/P19_CIRV P19_CIRV] Acts as a suppressor of RNA-mediated gene silencing, also known as post-transcriptional gene silencing (PTGS), a mechanism of plant viral defense that limits the accumulation of viral RNAs. Binds to short interfering RNAs (siRNAs) with high affinity. Acts as a molecular caliper to specifically select siRNAs based on the length of the duplex region of the RNA.<ref>PMID:14697199</ref> <ref>PMID:19254536</ref> |
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
Check<jmol> | Check<jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
| - | <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/rp/1rpu_consurf.spt"</scriptWhenChecked> | + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/rp/1rpu_consurf.spt"</scriptWhenChecked> |
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
</jmolCheckbox> | </jmolCheckbox> | ||
| - | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/ | + | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1rpu ConSurf]. |
<div style="clear:both"></div> | <div style="clear:both"></div> | ||
| - | <div style="background-color:#fffaf0;"> | ||
| - | == Publication Abstract from PubMed == | ||
| - | RNA silencing in plants likely exists as a defense mechanism against molecular parasites such as RNA viruses, retrotransposons, and transgenes. As a result, many plant viruses have adapted mechanisms to evade and suppress gene silencing. Tombusviruses express a 19 kDa protein (p19), which has been shown to suppress RNA silencing in vivo and bind silencing-generated and synthetic small interfering RNAs (siRNAs) in vitro. Here we report the 2.5 A crystal structure of p19 from the Carnation Italian ringspot virus (CIRV) bound to a 21 nt siRNA and demonstrate in biochemical and in vivo assays that CIRV p19 protein acts as a molecular caliper to specifically select siRNAs based on the length of the duplex region of the RNA. | ||
| - | |||
| - | Size selective recognition of siRNA by an RNA silencing suppressor.,Vargason JM, Szittya G, Burgyan J, Tanaka Hall TM Cell. 2003 Dec 26;115(7):799-811. PMID:14697199<ref>PMID:14697199</ref> | ||
| - | |||
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| - | </div> | ||
| - | <div class="pdbe-citations 1rpu" style="background-color:#fffaf0;"></div> | ||
==See Also== | ==See Also== | ||
| - | + | *[[Flock house virus protein B2|Flock house virus protein B2]] | |
| - | *[[Flock house virus B2 | + | |
*[[P19|P19]] | *[[P19|P19]] | ||
| - | *[[RNA Interference|RNA Interference]] | ||
*[[RNA silencing suppressor|RNA silencing suppressor]] | *[[RNA silencing suppressor|RNA silencing suppressor]] | ||
*[[Suppression of RNA Silencing by Viruses|Suppression of RNA Silencing by Viruses]] | *[[Suppression of RNA Silencing by Viruses|Suppression of RNA Silencing by Viruses]] | ||
*[[Tomato aspermy virus protein 2b Suppression of RNA Silencing|Tomato aspermy virus protein 2b Suppression of RNA Silencing]] | *[[Tomato aspermy virus protein 2b Suppression of RNA Silencing|Tomato aspermy virus protein 2b Suppression of RNA Silencing]] | ||
| - | *[[User:Wayne Decatur/Chem791A Work Session|User:Wayne Decatur/Chem791A Work Session]] | ||
| - | *[[User:Wayne Decatur/Flock house virus B2 protein Suppression of RNA Silencing|User:Wayne Decatur/Flock house virus B2 protein Suppression of RNA Silencing]] | ||
| - | *[[User:Wayne Decatur/Plant Viral Protein p19 Suppression of RNA Silencing|User:Wayne Decatur/Plant Viral Protein p19 Suppression of RNA Silencing]] | ||
| - | *[[User:Wayne Decatur/Suppression of RNA Silencing by Viruses|User:Wayne Decatur/Suppression of RNA Silencing by Viruses]] | ||
| - | *[[User:Wayne Decatur/Teaching Proteopedia|User:Wayne Decatur/Teaching Proteopedia]] | ||
| - | *[[User:Wayne Decatur/Tomato aspermy virus protein 2b Suppression of RNA Silencing|User:Wayne Decatur/Tomato aspermy virus protein 2b Suppression of RNA Silencing]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: | + | [[Category: Carnation Italian ringspot virus]] |
| - | [[Category: | + | [[Category: Large Structures]] |
| - | [[Category: | + | [[Category: Burgyan J]] |
| - | + | [[Category: Hall TMT]] | |
| - | + | [[Category: Szittya G]] | |
| - | [[Category: | + | [[Category: Vargason JM]] |
| - | [[Category: | + | |
| - | [[Category: | + | |
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Current revision
Crystal Structure of CIRV p19 bound to siRNA
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