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1nbf

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(New page: 200px<br /> <applet load="1nbf" size="450" color="white" frame="true" align="right" spinBox="true" caption="1nbf, resolution 2.3&Aring;" /> '''Crystal structure of...)
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[[Image:1nbf.gif|left|200px]]<br />
 
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<applet load="1nbf" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1nbf, resolution 2.3&Aring;" />
 
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'''Crystal structure of a UBP-family deubiquitinating enzyme in isolation and in complex with ubiquitin aldehyde'''<br />
 
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==Overview==
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==Crystal structure of a UBP-family deubiquitinating enzyme in isolation and in complex with ubiquitin aldehyde==
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The ubiquitin-specific processing protease (UBP) family of, deubiquitinating enzymes plays an essential role in numerous cellular, processes. HAUSP, a representative UBP, specifically deubiquitinates and, hence stabilizes the tumor suppressor protein p53. Here, we report the, crystal structures of the 40 kDa catalytic core domain of HAUSP in, isolation and in complex with ubiquitin aldehyde. These studies reveal, that the UBP deubiquitinating enzymes exhibit a conserved three-domain, architecture, comprising Fingers, Palm, and Thumb. The leaving ubiquitin, moiety is specifically coordinated by the Fingers, with its C terminus, placed in the active site between the Palm and the Thumb. Binding by, ubiquitin aldehyde induces a drastic conformational change in the active, site that realigns the catalytic triad residues for catalysis.
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<StructureSection load='1nbf' size='340' side='right'caption='[[1nbf]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1nbf]] is a 5 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=1NBF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NBF 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]] 2.3&#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=GLZ:AMINO-ACETALDEHYDE'>GLZ</scene></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=1nbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nbf OCA], [https://pdbe.org/1nbf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nbf RCSB], [https://www.ebi.ac.uk/pdbsum/1nbf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nbf ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/UBP7_HUMAN UBP7_HUMAN] Hydrolase that deubiquitinates target proteins such as FOXO4, p53/TP53, MDM2, ERCC6, DNMT1, UHRF1, PTEN and DAXX. Together with DAXX, prevents MDM2 self-ubiquitination and enhances the E3 ligase activity of MDM2 towards p53/TP53, thereby promoting p53/TP53 ubiquitination and proteasomal degradation. Deubiquitinates p53/TP53 and MDM2 and strongly stabilizes p53/TP53 even in the presence of excess MDM2, and also induces p53/TP53-dependent cell growth repression and apoptosis. Deubiquitination of FOXO4 in presence of hydrogen peroxide is not dependent on p53/TP53 and inhibits FOXO4-induced transcriptional activity. In association with DAXX, is involved in the deubiquitination and translocation of PTEN from the nucleus to the cytoplasm, both processes that are counteracted by PML. Involved in cell proliferation during early embryonic development. Involved in transcription-coupled nucleotide excision repair (TC-NER) in response to UV damage: recruited to DNA damage sites following interaction with KIAA1530/UVSSA and promotes deubiquitination of ERCC6, preventing UV-induced degradation of ERCC6. Contributes to the overall stabilization and trans-activation capability of the herpesvirus 1 trans-acting transcriptional protein ICP0/VMW110 during HSV-1 infection. Involved in maintenance of DNA methylation via its interaction with UHRF1 and DNMT1: acts by mediating deubiquitination of UHRF1 and DNMT1, preventing their degradation and promoting DNA methylation by DNMT1. Exhibits a preference towards 'Lys-48'-linked Ubiquitin chains.<ref>PMID:11923872</ref> <ref>PMID:14506283</ref> <ref>PMID:15053880</ref> <ref>PMID:16160161</ref> <ref>PMID:16964248</ref> <ref>PMID:18716620</ref> <ref>PMID:18590780</ref> <ref>PMID:20153724</ref> <ref>PMID:21745816</ref> <ref>PMID:22411829</ref> <ref>PMID:22689415</ref> <ref>PMID:22466611</ref> <ref>PMID:22466612</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/nb/1nbf_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=1nbf 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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1NBF is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Active as [http://en.wikipedia.org/wiki/Ubiquitin_thiolesterase Ubiquitin thiolesterase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.2.15 3.1.2.15] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NBF OCA].
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*[[Thioesterase 3D structures|Thioesterase 3D structures]]
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*[[3D structures of ubiquitin|3D structures of ubiquitin]]
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==Reference==
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== References ==
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Crystal structure of a UBP-family deubiquitinating enzyme in isolation and in complex with ubiquitin aldehyde., Hu M, Li P, Li M, Li W, Yao T, Wu JW, Gu W, Cohen RE, Shi Y, Cell. 2002 Dec 27;111(7):1041-54. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12507430 12507430]
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<references/>
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__TOC__
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</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Protein complex]]
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[[Category: Large Structures]]
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[[Category: Ubiquitin thiolesterase]]
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[[Category: Cohen RE]]
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[[Category: Cohen, R.E.]]
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[[Category: Gu W]]
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[[Category: Gu, W.]]
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[[Category: Hu M]]
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[[Category: Hu, M.]]
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[[Category: Li M]]
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[[Category: Li, M.]]
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[[Category: Li P]]
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[[Category: Li, P.]]
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[[Category: Li W]]
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[[Category: Li, W.]]
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[[Category: Shi Y]]
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[[Category: Shi, Y.]]
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[[Category: Wu J-W]]
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[[Category: Wu, J.W.]]
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[[Category: Yao T]]
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[[Category: Yao, T.]]
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[[Category: catalytic mechanisms of upbs]]
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[[Category: deubiquitinating enzyme]]
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[[Category: hausp]]
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[[Category: ubiquitin binding]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 18:20:13 2007''
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Current revision

Crystal structure of a UBP-family deubiquitinating enzyme in isolation and in complex with ubiquitin aldehyde

PDB ID 1nbf

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