1wr1

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{{Seed}}
 
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[[Image:1wr1.png|left|200px]]
 
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==The complex structure of Dsk2p UBA with ubiquitin==
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The line below this paragraph, containing "STRUCTURE_1wr1", creates the "Structure Box" on the page.
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<StructureSection load='1wr1' size='340' side='right'caption='[[1wr1]]' 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'>[[1wr1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WR1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WR1 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">Solution NMR</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=1wr1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wr1 OCA], [https://pdbe.org/1wr1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wr1 RCSB], [https://www.ebi.ac.uk/pdbsum/1wr1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wr1 ProSAT]</span></td></tr>
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{{STRUCTURE_1wr1| PDB=1wr1 | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/UBI4P_YEAST UBI4P_YEAST] Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, and DNA-damage responses. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling (By similarity).
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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/wr/1wr1_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=1wr1 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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The ubiquitin-associated (UBA) domain is one of the most frequently occurring motifs that recognize ubiquitin tags. Dsk2p, a UBA-containing protein from Saccharomyces cerevisiae, is involved in the ubiquitin-proteasome proteolytic pathway and has been implicated in spindle pole duplication. Here we present the solution structure of the UBA domain of Dsk2p (Dsk2(UBA)) in complex with ubiquitin. The structure reveals that the UBA domain uses a mode of ubiquitin recognition that is similar to that of the CUE domain, another ubiquitin binding motif that shares low sequence homology but high structural similarity with UBA domains. These two domains, as well as the structurally unrelated ubiquitin binding motif UIM, provide a common, crucial recognition site for ubiquitin, comprising a hydrogen-bonding acceptor for the amide group of Gly-47, and a methyl group that packs against the hydrophobic pocket of ubiquitin formed by Leu-8, Ile-44, His-68, and Val-70.
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===The complex sturcture of Dsk2p UBA with ubiquitin===
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Structure of the UBA domain of Dsk2p in complex with ubiquitin molecular determinants for ubiquitin recognition.,Ohno A, Jee J, Fujiwara K, Tenno T, Goda N, Tochio H, Kobayashi H, Hiroaki H, Shirakawa M Structure. 2005 Apr;13(4):521-32. PMID:15837191<ref>PMID:15837191</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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<div class="pdbe-citations 1wr1" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_15837191}}, adds the Publication Abstract to the page
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*[[3D structures of ubiquitin|3D structures of ubiquitin]]
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(as it appears on PubMed at http://www.pubmed.gov), where 15837191 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_15837191}}
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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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1WR1 is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WR1 OCA].
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==Reference==
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<ref group="xtra">PMID:15837191</ref><references group="xtra"/>
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[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
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[[Category: Fujiwara, K.]]
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[[Category: Fujiwara K]]
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[[Category: Goda, N.]]
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[[Category: Goda N]]
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[[Category: Hiroaki, H.]]
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[[Category: Hiroaki H]]
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[[Category: Jee, J G.]]
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[[Category: Jee JG]]
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[[Category: Ohno, A.]]
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[[Category: Ohno A]]
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[[Category: Shirakawa, M.]]
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[[Category: Shirakawa M]]
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[[Category: Tenno, T.]]
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[[Category: Tenno T]]
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[[Category: Tochio, H.]]
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[[Category: Tochio H]]
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[[Category: Kobayashi, H.]]
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[[Category: Kobayashi H]]
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[[Category: Dsk2]]
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[[Category: Uba domain]]
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[[Category: Uba-ubiquitin complex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 04:50:41 2009''
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Current revision

The complex structure of Dsk2p UBA with ubiquitin

PDB ID 1wr1

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