3k4e

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[[Image:3k4e.png|left|200px]]
 
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==Puf3 RNA binding domain bound to Cox17 RNA 3' UTR recognition sequence site A==
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The line below this paragraph, containing "STRUCTURE_3k4e", creates the "Structure Box" on the page.
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<StructureSection load='3k4e' size='340' side='right'caption='[[3k4e]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3k4e]] is a 6 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=3K4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K4E FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.2&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3k4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k4e OCA], [https://pdbe.org/3k4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k4e RCSB], [https://www.ebi.ac.uk/pdbsum/3k4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k4e ProSAT]</span></td></tr>
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{{STRUCTURE_3k4e| PDB=3k4e | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/PUF3_YEAST PUF3_YEAST] RNA-binding protein involved in post-transcriptional regulation. Negatively regulates expression of COX17 by binding to the 3'-UTR of COX17 mRNA. Promotes decay of COX17 mRNA by enhancing its rate of deadenylation and subsequent turnover. Predominantly binds to mRNAs encoding mitochondrial proteins and localizes them to the vicinity of mitochondria for translation. Regulates mitochondrial biogenesis, motility and morphology.<ref>PMID:11101532</ref> <ref>PMID:15337848</ref> <ref>PMID:16355254</ref> <ref>PMID:16244132</ref> <ref>PMID:17210948</ref> <ref>PMID:18523582</ref> <ref>PMID:18094119</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k4/3k4e_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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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=3k4e ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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A single regulatory protein can control the fate of many mRNAs with related functions. The Puf3 protein of Saccharomyces cerevisiae is exemplary, as it binds and regulates more than 100 mRNAs that encode proteins with mitochondrial function. Here we elucidate the structural basis of that specificity. To do so, we explore the crystal structures of Puf3p complexes with 2 cognate RNAs. The key determinant of Puf3p specificity is an unusual interaction between a distinctive pocket of the protein with an RNA base outside the "core" PUF-binding site. That interaction dramatically affects binding affinity in vitro and is required for regulation in vivo. The Puf3p structures, combined with those of Puf4p in the same organism, illuminate the structural basis of natural PUF-RNA networks. Yeast Puf3p binds its own RNAs because they possess a -2C and is excluded from those of Puf4p which contain an additional nucleotide in the core-binding site.
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===Puf3 RNA binding domain bound to Cox17 RNA 3' UTR recognition sequence site A===
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A 5' cytosine binding pocket in Puf3p specifies regulation of mitochondrial mRNAs.,Zhu D, Stumpf CR, Krahn JM, Wickens M, Hall TM Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20192-7. Epub 2009 Nov 16. PMID:19918084<ref>PMID:19918084</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_19918084}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 3k4e" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 19918084 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19918084}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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[[3k4e]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K4E OCA].
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==Reference==
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<ref group="xtra">PMID:19918084</ref><references group="xtra"/>
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[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
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[[Category: Hall, T M.T]]
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[[Category: Hall TMT]]
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[[Category: Krahn, J M.]]
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[[Category: Krahn JM]]
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[[Category: Stumpf, C R.]]
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[[Category: Stumpf CR]]
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[[Category: Wickens, M.]]
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[[Category: Wickens M]]
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[[Category: Zhu,D.]]
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[[Category: Zhu D]]

Current revision

Puf3 RNA binding domain bound to Cox17 RNA 3' UTR recognition sequence site A

PDB ID 3k4e

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