2ydr

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[[Image:2ydr.jpg|left|200px]]
 
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==CpOGA D298N in complex with p53-derived O-GlcNAc peptide==
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The line below this paragraph, containing "STRUCTURE_2ydr", creates the "Structure Box" on the page.
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<StructureSection load='2ydr' size='340' side='right'caption='[[2ydr]], [[Resolution|resolution]] 2.75&Aring;' 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'>[[2ydr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2YDR 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]] 2.75&#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=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
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{{STRUCTURE_2ydr| PDB=2ydr | SCENE= }}
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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=2ydr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ydr OCA], [https://pdbe.org/2ydr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ydr RCSB], [https://www.ebi.ac.uk/pdbsum/2ydr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ydr ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/OGA_CLOP1 OGA_CLOP1] Biological function unknown. Capable of hydrolyzing the glycosidic link of O-GlcNAcylated proteins.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Protein O-GlcNAcylation is an essential reversible posttranslational modification in higher eukaryotes. O-GlcNAc addition and removal is catalyzed by O-GlcNAc transferase and O-GlcNAcase, respectively. We report the molecular details of the interaction of a bacterial O-GlcNAcase homolog with three different synthetic glycopeptides derived from characterized O-GlcNAc sites in the human proteome. Strikingly, the peptides bind a conserved O-GlcNAcase substrate binding groove with similar orientation and conformation. In addition to extensive contacts with the sugar, O-GlcNAcase recognizes the peptide backbone through hydrophobic interactions and intramolecular hydrogen bonds, while avoiding interactions with the glycopeptide side chains. These findings elucidate the molecular basis of O-GlcNAcase substrate specificity, explaining how a single enzyme achieves cycling of the complete O-GlcNAc proteome. In addition, this work will aid development of O-GlcNAcase inhibitors that target the peptide binding site.
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===CpOGA D298N in complex with p53-derived O-GlcNAc peptide===
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Synergy of Peptide and Sugar in O-GlcNAcase Substrate Recognition.,Schimpl M, Borodkin VS, Gray LJ, van Aalten DM Chem Biol. 2012 Feb 24;19(2):173-8. PMID:22365600<ref>PMID:22365600</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 2ydr" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_22365600}}, adds the Publication Abstract to the page
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*[[O-GlcNAcase|O-GlcNAcase]]
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(as it appears on PubMed at http://www.pubmed.gov), where 22365600 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_22365600}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[2ydr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YDR OCA].
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==Reference==
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<ref group="xtra">PMID:022365600</ref><references group="xtra"/>
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[[Category: Beta-N-acetylhexosaminidase]]
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[[Category: Clostridium perfringens]]
[[Category: Clostridium perfringens]]
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[[Category: Aalten, D M.F Van.]]
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[[Category: Homo sapiens]]
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[[Category: Borodkin, V S.]]
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[[Category: Large Structures]]
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[[Category: Gray, L J.]]
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[[Category: Borodkin VS]]
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[[Category: Schimpl, M.]]
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[[Category: Gray LJ]]
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[[Category: Cell cycle]]
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[[Category: Schimpl M]]
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[[Category: Hydrolase-peptide complex]]
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[[Category: Van Aalten DMF]]

Current revision

CpOGA D298N in complex with p53-derived O-GlcNAc peptide

PDB ID 2ydr

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