2v3m

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[[Image:2v3m.png|left|200px]]
 
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==Structure of the Gar1 domain of NAf1==
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The line below this paragraph, containing "STRUCTURE_2v3m", creates the "Structure Box" on the page.
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<StructureSection load='2v3m' size='340' side='right'caption='[[2v3m]], [[Resolution|resolution]] 2.74&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'>[[2v3m]] 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=2V3M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2V3M FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.74&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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{{STRUCTURE_2v3m| PDB=2v3m | SCENE= }}
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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=2v3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v3m OCA], [https://pdbe.org/2v3m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2v3m RCSB], [https://www.ebi.ac.uk/pdbsum/2v3m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2v3m ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/NAF1_YEAST NAF1_YEAST] RNA-binding protein required for the maturation of box H/ACA snoRNPs complex and ribosome biogenesis. During assembly of the H/ACA snoRNPs complex, it associates with the complex and disappears during maturation of the complex and is replaced by GAR1 to yield mature H/ACA snoRNPs complex. Acts as a competitive binder for CBF5 probably required to prevent non-cognate RNAs from being loaded during transport of the particle by inducing a non-productive conformation of CBF5.<ref>PMID:12228251</ref> <ref>PMID:12242285</ref> <ref>PMID:12515383</ref> <ref>PMID:15798213</ref> <ref>PMID:15964797</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/v3/2v3m_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2v3m 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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Naf1 is an essential protein involved in the maturation of box H/ACA ribonucleoproteins, a group of particles required for ribosome biogenesis, modification of spliceosomal small nuclear RNAs and telomere synthesis. Naf1 participates in the assembly of the RNP at transcription sites and in the nuclear trafficking of the complex. The crystal structure of a domain of yeast Naf1p, Naf1Delta1p, reveals a striking structural homology with the core domain of archaeal Gar1, an essential protein component of the mature RNP; it suggests that Naf1p and Gar1p have a common binding site on the enzymatic protein component of the particle, Cbf5p. We propose that Naf1p is a competitive binder for Cbf5p, which is replaced by Gar1p during maturation of the H/ACA particle. The exchange of Naf1p by Gar1p might be prompted by external factors that alter the oligomerisation state of Naf1p and Gar1p. The structural homology with Gar1 suggests that the function of Naf1 involves preventing non-cognate RNAs from being loaded during transport of the particle by inducing a non-productive conformation of Cbf5.
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===STRUCTURE OF THE GAR1 DOMAIN OF NAF1===
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The box H/ACA RNP assembly factor Naf1p contains a domain homologous to Gar1p mediating its interaction with Cbf5p.,Leulliot N, Godin KS, Hoareau-Aveilla C, Quevillon-Cheruel S, Varani G, Henry Y, Van Tilbeurgh H J Mol Biol. 2007 Aug 31;371(5):1338-53. Epub 2007 Jun 16. PMID:17612558<ref>PMID:17612558</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_17612558}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2v3m" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 17612558 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_17612558}}
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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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[[2v3m]] 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=2V3M OCA].
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==Reference==
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<ref group="xtra">PMID:017612558</ref><references group="xtra"/>
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[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
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[[Category: Godin, K S.]]
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[[Category: Godin KS]]
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[[Category: Henry, Y.]]
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[[Category: Henry Y]]
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[[Category: Hoareau-Aveilla, C.]]
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[[Category: Hoareau-Aveilla C]]
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[[Category: Leulliot, N.]]
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[[Category: Leulliot N]]
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[[Category: Quevillon-Cheruel, S.]]
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[[Category: Quevillon-Cheruel S]]
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[[Category: Tilbeurgh, H Van.]]
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[[Category: Varani G]]
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[[Category: Varani, G.]]
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[[Category: Van Tilbeurgh H]]
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[[Category: Gar1]]
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[[Category: Hypothetical protein]]
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[[Category: Naf1]]
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[[Category: Phosphorylation]]
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[[Category: Ribosomal protein]]
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[[Category: Snornp]]
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Current revision

Structure of the Gar1 domain of NAf1

PDB ID 2v3m

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