7vpn

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<StructureSection load='7vpn' size='340' side='right'caption='[[7vpn]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
<StructureSection load='7vpn' size='340' side='right'caption='[[7vpn]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[7vpn]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VPN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VPN FirstGlance]. <br>
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<table><tr><td colspan='2'>[[7vpn]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Coprinopsis_cinerea_okayama7#130 Coprinopsis cinerea okayama7#130]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7VPN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VPN FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=OGA:N-OXALYLGLYCINE'>OGA</scene></td></tr>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=OGA:N-OXALYLGLYCINE'>OGA</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7vpn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vpn OCA], [https://pdbe.org/7vpn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vpn RCSB], [https://www.ebi.ac.uk/pdbsum/7vpn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vpn ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7vpn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vpn OCA], [https://pdbe.org/7vpn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vpn RCSB], [https://www.ebi.ac.uk/pdbsum/7vpn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vpn ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[[https://www.uniprot.org/uniprot/A8P1J0_COPC7 A8P1J0_COPC7]]
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N(6)-methyladenosine (6mA) is a DNA modification that has recently been found to play regulatory roles during mammalian early embryo development and mitochondrial transcription. We found that a dioxygenase CcTet from the fungus Coprinopsis cinerea is also a dsDNA 6mA demethylase. It oxidizes 6mA to the intermediate N(6)-hydroxymethyladenosine (6hmA) with robust activity of 6mA-containing duplex DNA (dsDNA) as well as isolated genomics DNA. Structural characterization revealed that CcTet utilizes three flexible loop regions and two key residues-D337 and G331-in the active pocket to preferentially recognize substrates on dsDNA. A CcTet D337F mutant protein retained the catalytic activity on 6mA but lost activity on 5-methylcytosine. Our findings uncovered a 6mA demethylase that works on dsDNA, suggesting potential 6mA demethylation in fungi and elucidating 6mA recognition and the catalytic mechanism of CcTet. The CcTet D337F mutant protein also provides a chemical biology tool for future functional manipulation of DNA 6mA in vivo.
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A fungal dioxygenase CcTet serves as a eukaryotic 6mA demethylase on duplex DNA.,Mu Y, Zhang L, Hu J, Zhou J, Lin HW, He C, Chen HZ, Zhang L Nat Chem Biol. 2022 Jun 2. pii: 10.1038/s41589-022-01041-3. doi:, 10.1038/s41589-022-01041-3. PMID:35654845<ref>PMID:35654845</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 7vpn" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Coprinopsis cinerea okayama7#130]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Mu, Y J]]
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[[Category: Mu YJ]]
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[[Category: Zhang, L]]
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[[Category: Zhang L]]
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[[Category: 5-methylcytosine oxidation]]
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[[Category: Dioxygenase]]
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[[Category: Dna binding protein]]
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[[Category: N6-methyldeoxyadenine demethylation]]
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Revision as of 07:24, 8 September 2022

Crystal Structure of the dioxygenase CcTet from Coprinopsis cinereain in complex with Mn(II) and N-Oxalylglycine

PDB ID 7vpn

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