7vpn
From Proteopedia
(Difference between revisions)
| Line 1: | Line 1: | ||
==Crystal Structure of the dioxygenase CcTet from Coprinopsis cinereain in complex with Mn(II) and N-Oxalylglycine== | ==Crystal Structure of the dioxygenase CcTet from Coprinopsis cinereain in complex with Mn(II) and N-Oxalylglycine== | ||
| - | <StructureSection load='7vpn' size='340' side='right'caption='[[7vpn]]' scene=''> | + | <StructureSection load='7vpn' size='340' side='right'caption='[[7vpn]], [[Resolution|resolution]] 2.60Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>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> | + | <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> |
| - | </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> | + | </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> | ||
</table> | </table> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | 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. | ||
| + | |||
| + | 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> | ||
| + | |||
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 7vpn" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | [[Category: Mu | + | [[Category: Mu, Y J]] |
| - | [[Category: Zhang L]] | + | [[Category: Zhang, L]] |
| + | [[Category: 5-methylcytosine oxidation]] | ||
| + | [[Category: Dioxygenase]] | ||
| + | [[Category: Dna binding protein]] | ||
| + | [[Category: N6-methyldeoxyadenine demethylation]] | ||
Revision as of 05:23, 15 June 2022
Crystal Structure of the dioxygenase CcTet from Coprinopsis cinereain in complex with Mn(II) and N-Oxalylglycine
| |||||||||||
