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3dy3

From Proteopedia

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[[Image:3dy3.png|left|200px]]
 
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==Crystal structure of yeast 20S proteasome in complex with the epimer form of spirolactacystin==
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The line below this paragraph, containing "STRUCTURE_3dy3", creates the "Structure Box" on the page.
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<StructureSection load='3dy3' size='340' side='right'caption='[[3dy3]], [[Resolution|resolution]] 2.81&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'>[[3dy3]] is a 20 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=3DY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DY3 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]] 2.81&#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=SLR:(3R,4R)-3-HYDROXY-2-[(1S)-1-HYDROXY-2-METHYLPROPYL]-4-METHYL-5-OXO-D-PROLINE'>SLR</scene></td></tr>
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{{STRUCTURE_3dy3| PDB=3dy3 | 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=3dy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dy3 OCA], [https://pdbe.org/3dy3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dy3 RCSB], [https://www.ebi.ac.uk/pdbsum/3dy3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dy3 ProSAT]</span></td></tr>
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</table>
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===Crystal structure of yeast 20S proteasome in complex with the epimer form of spirolactacystin===
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== Function ==
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[https://www.uniprot.org/uniprot/PSA2_YEAST PSA2_YEAST] The proteasome degrades poly-ubiquitinated proteins in the cytoplasm and in the nucleus. It is essential for the regulated turnover of proteins and for the removal of misfolded proteins. The proteasome is a multicatalytic proteinase complex that is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. It has an ATP-dependent proteolytic activity.
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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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(as it appears on PubMed at http://www.pubmed.gov), where 18928262 is the PubMed ID number.
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dy/3dy3_consurf.spt"</scriptWhenChecked>
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{{ABSTRACT_PUBMED_18928262}}
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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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==About this Structure==
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</jmolCheckbox>
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[[3dy3]] is a 28 chain structure of [[Proteasome]] 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=3DY3 OCA].
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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=3dy3 ConSurf].
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<div style="clear:both"></div>
==See Also==
==See Also==
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*[[Proteasome]]
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*[[Proteasome 3D structures|Proteasome 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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<ref group="xtra">PMID:18928262</ref><references group="xtra"/>
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[[Category: Large Structures]]
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[[Category: Proteasome endopeptidase complex]]
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[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
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[[Category: Balskus, E.]]
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[[Category: Balskus E]]
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[[Category: Groll, M.]]
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[[Category: Groll M]]
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[[Category: Jacobsen, E.]]
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[[Category: Jacobsen E]]
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[[Category: Cytoplasm]]
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[[Category: Hydrolase]]
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[[Category: Inhibitor]]
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[[Category: Nucleus]]
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[[Category: Phosphoprotein]]
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[[Category: Protease]]
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[[Category: Proteasome]]
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[[Category: Protein degradation]]
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[[Category: Threonine protease]]
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[[Category: Ubiquitin-proteasome-pathway]]
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[[Category: Ubl conjugation]]
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[[Category: Zymogen]]
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Current revision

Crystal structure of yeast 20S proteasome in complex with the epimer form of spirolactacystin

PDB ID 3dy3

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