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1rpu: Difference between revisions

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<StructureSection load='1rpu' size='340' side='right'caption='[[1rpu]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
<StructureSection load='1rpu' size='340' side='right'caption='[[1rpu]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[1rpu]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cirv Cirv]. 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 [http://proteopedia.org/fgij/fg.htm?mol=1RPU FirstGlance]. <br>
<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='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">p19 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=39443 CIRV])</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]] 2.5&#8491;</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=1rpu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rpu OCA], [http://pdbe.org/1rpu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1rpu RCSB], [http://www.ebi.ac.uk/pdbsum/1rpu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1rpu ProSAT]</span></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=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 ==
[[http://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>
[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]]
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</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].
</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&reg;/PubMed&reg;, 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==
*[[Alignment of 1rpu vs 1r9f|Alignment of 1rpu vs 1r9f]]
*[[Flock house virus protein B2|Flock house virus protein B2]]
*[[Flock house virus protein B2|Flock house virus protein 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: Cirv]]
[[Category: Carnation Italian ringspot virus]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Burgyan, J]]
[[Category: Burgyan J]]
[[Category: Hall, T M.T]]
[[Category: Hall TMT]]
[[Category: Szittya, G]]
[[Category: Szittya G]]
[[Category: Vargason, J M]]
[[Category: Vargason JM]]
[[Category: Protein-rna complex]]
[[Category: Rna binding protein-rna complex]]
[[Category: Rna double helix]]
[[Category: Rna length recognition]]
[[Category: Rnai]]

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