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New page: left|200px<br /><applet load="1sq9" size="450" color="white" frame="true" align="right" spinBox="true" caption="1sq9, resolution 1.9Å" /> '''Structure of Ski8p, a...
 
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[[Image:1sq9.jpg|left|200px]]<br /><applet load="1sq9" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1sq9, resolution 1.9&Aring;" />
'''Structure of Ski8p, a WD repeat protein involved in mRNA degradation and meiotic recombination'''<br />


==Overview==
==Structure of Ski8p, a WD repeat protein involved in mRNA degradation and meiotic recombination==
Ski8p is a 44-kD protein that primarily functions in the regulation of, exosome-mediated, 3'--&gt; 5' degradation of damaged mRNA. It does so by, forming a complex with two partner proteins, Ski2p and Ski3p, which, complete a complex that is capable of recruiting and activating the, exosome/Ski7p complex that functions in RNA degradation. Ski8p also, functions in meiotic recombination in complex with Spo11 in yeast. It is, one of the many hundreds of primarily eukaryotic proteins containing, tandem copies of WD repeats (also known as WD40 or beta-transducin, repeats), which are short ~40 amino acid motifs, often terminating in a, Trp-Asp dipeptide. Genomic analyses have demonstrated that WD repeats are, found in 1%-2% of proteins in a typical eukaryote, but are extremely rare, in prokaryotes. Almost all structurally characterized WD-repeat proteins, are composed of seven such repeats and fold into seven-bladed beta, propellers. Ski8p was thought to contain five WD repeats on the basis of, primary sequence analysis implying a five-bladed propeller. The 1.9 A, crystal structure unexpectedly exhibits a seven-bladed propeller fold with, seven structurally authentic WD repeats. Structure-based sequence, alignments show additional sequence diversity in the two undetected, repeats. This demonstrates that many WD repeats have not yet been, identified in sequences and also raises the possibility that the, seven-bladed propeller may be the predominant fold for this family of, proteins.
<StructureSection load='1sq9' size='340' side='right'caption='[[1sq9]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1sq9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SQ9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SQ9 FirstGlance]. <br>
1SQ9 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1SQ9 OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1sq9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sq9 OCA], [https://pdbe.org/1sq9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sq9 RCSB], [https://www.ebi.ac.uk/pdbsum/1sq9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sq9 ProSAT]</span></td></tr>
The structure of Ski8p, a protein regulating mRNA degradation: Implications for WD protein structure., Madrona AY, Wilson DK, Protein Sci. 2004 Jun;13(6):1557-65. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15152089 15152089]
</table>
== Function ==
[https://www.uniprot.org/uniprot/SKI8_YEAST SKI8_YEAST] Involved in double-strand break (DSB) formation during meiotic recombination through stabilization of SPO11 association with meiotic chromosome and helping SPO11 to recruit other DSB proteins like REC102 and REC104 to meiotic chromosomes. Also component of the SKI complex involved in 3'-mRNA degradation pathway. Represses dsRNA virus propagation by specifically blocking translation of viral mRNAs, perhaps recognizing the absence of CAP or poly(A). Essential for controlling the propagation of M double-stranded RNA (dsRNA) and thus for preventing virus-induced cytopathology.<ref>PMID:6371496</ref> <ref>PMID:3029964</ref> <ref>PMID:7739557</ref> <ref>PMID:9258672</ref> <ref>PMID:9482746</ref> <ref>PMID:10744028</ref> <ref>PMID:11532933</ref> <ref>PMID:11720286</ref> <ref>PMID:14671320</ref> <ref>PMID:15044957</ref> <ref>PMID:14992724</ref> <ref>PMID:16816949</ref>
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sq/1sq9_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </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/main_output.php?pdb_ID=1sq9 ConSurf].
<div style="clear:both"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Single protein]]
[[Category: Madrona AY]]
[[Category: Madrona, A.Y.]]
[[Category: Wilson DK]]
[[Category: Wilson, D.K.]]
[[Category: SO4]]
[[Category: beta propeller]]
[[Category: beta-transducin repeat]]
[[Category: wd repeat]]
[[Category: wd40 repeat]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 02:33:46 2007''

Latest revision as of 08:32, 14 February 2024

Structure of Ski8p, a WD repeat protein involved in mRNA degradation and meiotic recombination

1sq9, resolution 1.90Å

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