1zdn

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[[Image:1zdn.gif|left|200px]]<br /><applet load="1zdn" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1zdn, resolution 1.93&Aring;" />
 
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'''Ubiquitin-conjugating enzyme E2S'''<br />
 
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==About this Structure==
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==Ubiquitin-conjugating enzyme E2S==
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1ZDN is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with <scene name='pdbligand=NA:'>NA</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Ubiquitin--protein_ligase Ubiquitin--protein ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.19 6.3.2.19] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZDN OCA].
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<StructureSection load='1zdn' size='340' side='right'caption='[[1zdn]], [[Resolution|resolution]] 1.93&Aring;' scene=''>
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[[Category: Homo sapiens]]
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== Structural highlights ==
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[[Category: Single protein]]
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<table><tr><td colspan='2'>[[1zdn]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZDN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZDN FirstGlance]. <br>
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[[Category: Ubiquitin--protein ligase]]
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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]] 1.93&#8491;</td></tr>
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[[Category: Arrowsmith, C.]]
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
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[[Category: Avvakumov, G V.]]
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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=1zdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zdn OCA], [https://pdbe.org/1zdn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zdn RCSB], [https://www.ebi.ac.uk/pdbsum/1zdn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zdn ProSAT]</span></td></tr>
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[[Category: Bochkarev, A.]]
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</table>
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[[Category: Dhe-Paganon, S.]]
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== Function ==
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[[Category: Edwards, A.]]
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[https://www.uniprot.org/uniprot/UBE2S_HUMAN UBE2S_HUMAN] Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. Catalyzes 'Lys-11'-linked polyubiquitination. Acts as an essential factor of the anaphase promoting complex/cyclosome (APC/C), a cell cycle-regulated ubiquitin ligase that controls progression through mitosis. Acts by specifically elongating 'Lys-11'-linked polyubiquitin chains initiated by the E2 enzyme UBE2C/UBCH10 on APC/C substrates, enhancing the degradation of APC/C substrates by the proteasome and promoting mitotic exit. Also acts by elongating ubiquitin chains initiated by the E2 enzyme UBE2D1/UBCH5 in vitro; it is however unclear whether UBE2D1/UBCH5 acts as a E2 enzyme for the APC/C in vivo. Also involved in ubiquitination and subsequent degradation of VHL, resulting in an accumulation of HIF1A. In vitro able to promote polyubiquitination using all 7 ubiquitin Lys residues, except 'Lys-48'-linked polyubiquitination.<ref>PMID:16819549</ref> <ref>PMID:19820702</ref> <ref>PMID:19822757</ref> <ref>PMID:20061386</ref> <ref>PMID:20622874</ref>
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[[Category: Mackenzie, F.]]
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== Evolutionary Conservation ==
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[[Category: Newman, E M.]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: SGC, Structural Genomics Consortium.]]
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Check<jmol>
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[[Category: Sundstrom, M.]]
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<jmolCheckbox>
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[[Category: Walker, J R.]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zd/1zdn_consurf.spt"</scriptWhenChecked>
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[[Category: Xue, S.]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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[[Category: NA]]
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<text>to colour the structure by Evolutionary Conservation</text>
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[[Category: ligase]]
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</jmolCheckbox>
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[[Category: sgc]]
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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=1zdn ConSurf].
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[[Category: structural genomics consortium]]
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<div style="clear:both"></div>
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[[Category: ubiquitin]]
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<div style="background-color:#fffaf0;">
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[[Category: ubiquitin-conjugating enzyme]]
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== Publication Abstract from PubMed ==
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Here we describe a systematic structure-function analysis of the human ubiquitin (Ub) E2 conjugating proteins, consisting of the determination of 15 new high-resolution three-dimensional structures of E2 catalytic domains, and autoubiquitylation assays for 26 Ub-loading E2s screened against a panel of nine different HECT (homologous to E6-AP carboxyl terminus) E3 ligase domains. Integration of our structural and biochemical data revealed several E2 surface properties associated with Ub chain building activity; (1) net positive or neutral E2 charge, (2) an "acidic trough" located near the catalytic Cys, surrounded by an extensive basic region, and (3) similarity to the previously described HECT binding signature in UBE2L3 (UbcH7). Mass spectrometry was used to characterize the autoubiquitylation products of a number of functional E2-HECT pairs, and demonstrated that HECT domains from different subfamilies catalyze the formation of very different types of Ub chains, largely independent of the E2 in the reaction. Our data set represents the first comprehensive analysis of E2-HECT E3 interactions, and thus provides a framework for better understanding the molecular mechanisms of ubiquitylation.
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:14:32 2008''
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A human ubiquitin conjugating enzyme (E2)-HECT E3 ligase structure-function screen.,Sheng Y, Hong JH, Doherty R, Srikumar T, Shloush J, Avvakumov GV, Walker JR, Xue S, Neculai D, Wan JW, Kim SK, Arrowsmith CH, Raught B, Dhe-Paganon S Mol Cell Proteomics. 2012 Aug;11(8):329-41. Epub 2012 Apr 10. PMID:22496338<ref>PMID:22496338</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 1zdn" style="background-color:#fffaf0;"></div>
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==See Also==
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*[[3D structures of ubiquitin conjugating enzyme|3D structures of ubiquitin conjugating enzyme]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Homo sapiens]]
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[[Category: Large Structures]]
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[[Category: Arrowsmith C]]
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[[Category: Avvakumov GV]]
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[[Category: Bochkarev A]]
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[[Category: Dhe-Paganon S]]
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[[Category: Edwards A]]
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[[Category: Mackenzie F]]
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[[Category: Newman EM]]
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[[Category: Sundstrom M]]
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[[Category: Walker JR]]
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[[Category: Xue S]]

Current revision

Ubiquitin-conjugating enzyme E2S

PDB ID 1zdn

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