2y5b: Difference between revisions

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[[Image:2y5b.jpg|left|200px]]


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==Structure of USP21 in complex with linear diubiquitin-aldehyde==
The line below this paragraph, containing "STRUCTURE_2y5b", creates the "Structure Box" on the page.
<StructureSection load='2y5b' size='340' side='right'caption='[[2y5b]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)  
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[2y5b]] is a 4 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=2Y5B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y5B FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7&#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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
{{STRUCTURE_2y5b|  PDB=2y5b  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2y5b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y5b OCA], [https://pdbe.org/2y5b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y5b RCSB], [https://www.ebi.ac.uk/pdbsum/2y5b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y5b ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/UBP21_HUMAN UBP21_HUMAN] Deubiquitinates histone H2A, a specific tag for epigenetic transcriptional repression, thereby acting as a coactivator. Deubiquitination of histone H2A releaves the repression of di- and trimethylation of histone H3 at 'Lys-4', resulting in regulation of transcriptional initiation. Regulates gene expression via histone H2A deubiquitination (By similarity). Also capable of removing NEDD8 from NEDD8 conjugates but has no effect on Sentrin-1 conjugates.<ref>PMID:10799498</ref>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Modification of proteins by ubiquitin (Ub) and Ub-like (Ubl) modifiers regulates a variety of cellular functions. The ability of Ub to form chains of eight structurally and functionally distinct types adds further complexity to the system. Ub-specific proteases (USPs) hydrolyse polyUb chains, and some have been suggested to be cross-reactive with Ubl modifiers, such as neural precursor cell expressed, developmentally downregulated 8 (NEDD8) and interferon-stimulated gene 15 (ISG15). Here, we report that USP21 cleaves Ub polymers, and with reduced activity also targets ISG15, but is inactive against NEDD8. A crystal structure of USP21 in complex with linear diUb aldehyde shows how USP21 interacts with polyUb through a previously unidentified second Ub- and ISG15-binding surface on the USP domain core. We also rationalize the inability of USP21 to target NEDD8 and identify differences that allow USPs to distinguish between structurally related modifications.


===Structure of USP21 in complex with linear diubiquitin-aldehyde===
Polyubiquitin binding and cross-reactivity in the USP domain deubiquitinase USP21.,Ye Y, Akutsu M, Reyes-Turcu F, Enchev RI, Wilkinson KD, Komander D EMBO Rep. 2011 Apr;12(4):350-7. Epub 2011 Mar 11. PMID:21399617<ref>PMID:21399617</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2y5b" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_21399617}}, adds the Publication Abstract to the page
*[[Thioesterase 3D structures|Thioesterase 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 21399617 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_21399617}}
__TOC__
 
</StructureSection>
==About this Structure==
[[2y5b]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y5B OCA].
 
==Reference==
<ref group="xtra">PMID:021399617</ref><references group="xtra"/>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Akutsu, M.]]
[[Category: Large Structures]]
[[Category: Enchev, R I.]]
[[Category: Akutsu M]]
[[Category: Komander, D.]]
[[Category: Enchev RI]]
[[Category: Reyes-Turcu, F.]]
[[Category: Komander D]]
[[Category: Wilkinson, K D.]]
[[Category: Reyes-Turcu F]]
[[Category: Ye, Y.]]
[[Category: Wilkinson KD]]
[[Category: Cell signaling]]
[[Category: Ye Y]]
[[Category: Isg15]]
[[Category: Nedd8]]
[[Category: Protein binding-hydrolase complex]]
[[Category: Ubiquitin]]
[[Category: Ubiquitin specific protease]]
[[Category: Usp]]

Latest revision as of 10:45, 20 December 2023

Structure of USP21 in complex with linear diubiquitin-aldehyde

2y5b, resolution 2.70Å

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