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1fzy

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(New page: 200px<br /><applet load="1fzy" size="450" color="white" frame="true" align="right" spinBox="true" caption="1fzy, resolution 1.90&Aring;" /> '''CRYSTAL STRUCTURE OF...)
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[[Image:1fzy.jpg|left|200px]]<br /><applet load="1fzy" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1fzy, resolution 1.90&Aring;" />
 
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'''CRYSTAL STRUCTURE OF SACCHAROMYCES CEREVISIAE UBIQUITIN CONJUGATING ENZYME 1'''<br />
 
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==Overview==
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==CRYSTAL STRUCTURE OF SACCHAROMYCES CEREVISIAE UBIQUITIN CONJUGATING ENZYME 1==
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BACKGROUND: Ubiquitin-conjugating enzymes (E2s) are central enzymes, involved in ubiquitin-mediated protein degradation. During this process, ubiquitin (Ub) and the E2 protein form an unstable E2-Ub thiolester, intermediate prior to the transfer of ubiquitin to an E3-ligase protein, and the labeling of a substrate for degradation. A series of complex, interactions occur among the target substrate, ubiquitin, E2, and E3 in, order to efficiently facilitate the transfer of the ubiquitin molecule., However, due to the inherent instability of the E2-Ub thiolester, the, structural details of this complex intermediate are not known. RESULTS: A, three-dimensional model of the E2-Ub thiolester intermediate has been, determined for the catalytic domain of the E2 protein Ubc1, (Ubc1(Delta450)) and ubiquitin from S. cerevisiae. The interface of the, E2-Ub intermediate was determined by kinetically monitoring thiolester, formation by 1H-(15)N HSQC spectra by using combinations of 15N-labeled, and unlabeled Ubc1(Delta450) and Ub proteins. By using the surface, interface as a guide and the X-ray structures of Ub and the 1.9 A, structure of Ubc1(Delta450) determined here, docking simulations followed, by energy minimization were used to produce the first model of a E2-Ub, thiolester intermediate. CONCLUSIONS: Complementary surfaces were found on, the E2 and Ub proteins whereby the C terminus of Ub wraps around the E2, protein terminating in the thiolester between C88 (Ubc1(Delta450)) and G76, (Ub). The model supports in vivo and in vitro experiments of E2, derivatives carrying surface residue substitutions. Furthermore, the model, provides insights into the arrangement of Ub, E2, and E3 within a ternary, targeting complex.
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<StructureSection load='1fzy' size='340' side='right'caption='[[1fzy]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1fzy]] is a 2 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=1FZY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FZY 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]] 1.9&#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=1fzy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fzy OCA], [https://pdbe.org/1fzy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fzy RCSB], [https://www.ebi.ac.uk/pdbsum/1fzy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fzy ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/UBC1_YEAST UBC1_YEAST] Catalyzes the covalent attachment of ubiquitin to other proteins. Functions in degradation of misfolded or regulated proteins localized in the endoplasmic reticulum (ER) lumen or membrane via the ubiquitin-proteasome system. Cognate E2 conjugating enzyme for the HRD1 ubiquitin ligase complex, which is part of the ERAD-L and ERAD-M pathways responsible for the rapid degradation of soluble lumenal and membrane proteins with misfolded lumenal domains (ERAD-L), or ER-membrane proteins with misfolded transmembrane domains (ERAD-M).<ref>PMID:10878801</ref> <ref>PMID:11146622</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/fz/1fzy_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=1fzy ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1FZY is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. 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://ispc.weizmann.ac.il/oca-bin/ocashort?id=1FZY OCA].
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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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==Reference==
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<references/>
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Structure of a conjugating enzyme-ubiquitin thiolester intermediate reveals a novel role for the ubiquitin tail., Hamilton KS, Ellison MJ, Barber KR, Williams RS, Huzil JT, McKenna S, Ptak C, Glover M, Shaw GS, Structure. 2001 Oct;9(10):897-904. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11591345 11591345]
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
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[[Category: Single protein]]
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[[Category: Glover M]]
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[[Category: Ubiquitin--protein ligase]]
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[[Category: Williams RS]]
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[[Category: Glover, M.]]
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[[Category: Williams, R.S.]]
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[[Category: alpha-beta roll]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 15:33:59 2007''
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CRYSTAL STRUCTURE OF SACCHAROMYCES CEREVISIAE UBIQUITIN CONJUGATING ENZYME 1

PDB ID 1fzy

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