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| ==Crystal structure of MNMC2 from Aquifex Aeolicus== | | ==Crystal structure of MNMC2 from Aquifex Aeolicus== |
| <StructureSection load='3vyw' size='340' side='right'caption='[[3vyw]], [[Resolution|resolution]] 2.49Å' scene=''> | | <StructureSection load='3vyw' size='340' side='right'caption='[[3vyw]]' scene=''> |
| == Structural highlights == | | == Structural highlights == |
| <table><tr><td colspan='2'>[[3vyw]] is a 4 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2e58 2e58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VYW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYW FirstGlance]. <br> | | <table><tr><td colspan='2'>This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2e58 2e58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VYW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VYW FirstGlance]. <br> |
| </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene></td></tr> | | </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=3vyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyw OCA], [https://pdbe.org/3vyw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyw RCSB], [https://www.ebi.ac.uk/pdbsum/3vyw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyw ProSAT]</span></td></tr> |
| <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=3vyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vyw OCA], [https://pdbe.org/3vyw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vyw RCSB], [https://www.ebi.ac.uk/pdbsum/3vyw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vyw ProSAT]</span></td></tr> | |
| </table> | | </table> |
| <div style="background-color:#fffaf0;">
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| == Publication Abstract from PubMed ==
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| Posttranscriptional modifications of the wobble uridine (U34) of tRNAs play a critical role in reading NNA/G codons belonging to split codon boxes. In a subset of Escherichia coli tRNA, this wobble uridine is modified to 5-methylaminomethyluridine (mnm(5)U34) through sequential enzymatic reactions. Uridine-34 is first converted to 5-carboxymethylaminomethyluridine (cmnm(5)U34) by the MnmE/MnmG enzyme complex. The cmnm(5)U34 is further modified to mnm(5)U by the bifunctional MnmC protein. In the first reaction, the FAD-dependent oxidase domain (MnmC1) converts cmnm(5)U into 5-aminomethyluridine (nm(5)U34), and this reaction is immediately followed by the methylation of the free amine group into mnm(5)U34 by the AdoMet-dependent domain (MnmC2). Aquifex aeolicus lacks a bifunctional MnmC protein fusion, and instead encodes the Rossmann-fold protein DUF752, which is homologous to the methyltransferase MnmC2 domain of E. coli MnmC (26 % identity). Here we determined the crystal structure of the A. aeolicus DUF752 protein at 2.5 A resolution, which revealed that it catalyzes the AdoMet-dependent methylation of nm(5)U in vitro, to form mnm(5)U34 in tRNA. We also showed that naturally occurring tRNA from A. aeolicus contains the 5-mnm group attached to the C5 atom of U34. Taken together, these results support the recent proposal of an alternative MnmC1-independent shortcut pathway for producing mnm(5)U34 in tRNAs.
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| Characterization and structure of the Aquifex aeolicus protein DUF752: a bacterial tRNA-methyltransferase (MnmC2) functioning without the usually fused oxidase domain (MnmC1).,Kitamura A, Nishimoto M, Sengoku T, Shibata R, Jager G, Bjork GR, Grosjean H, Yokoyama S, Bessho Y J Biol Chem. 2012 Oct 22. PMID:23091054<ref>PMID:23091054</ref>
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| From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| </div>
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| <div class="pdbe-citations 3vyw" style="background-color:#fffaf0;"></div>
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| == References ==
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| <references/>
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| __TOC__ | | __TOC__ |
| </StructureSection> | | </StructureSection> |
| [[Category: Large Structures]] | | [[Category: Large Structures]] |
| [[Category: Bessho, Y]] | | [[Category: Bessho Y]] |
| [[Category: Structural genomic]]
| | [[Category: Shibata R]] |
| [[Category: Shibata, R]] | | [[Category: Yokoyama S]] |
| [[Category: Yokoyama, S]] | |
| [[Category: 2-codon set]]
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| [[Category: 5-methylaminomethyl-2-thiouridine]]
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| [[Category: Genetic code]]
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| [[Category: Methyltransferase]]
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| [[Category: Modification enzyme]]
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| [[Category: National project on protein structural and functional analyse]]
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| [[Category: Nppsfa]]
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| [[Category: Rsgi]]
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| [[Category: Transferase]]
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| [[Category: Trna wobble uridine]]
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