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| | <StructureSection load='5d5q' size='340' side='right'caption='[[5d5q]], [[Resolution|resolution]] 2.50Å' scene=''> | | <StructureSection load='5d5q' size='340' side='right'caption='[[5d5q]], [[Resolution|resolution]] 2.50Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5d5q]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D5Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5D5Q FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5d5q]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D5Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D5Q FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=57O:(4,6-DIHYDROXY-3,5-DIMETHYLPYRIDIN-2-YL)ACETIC+ACID'>57O</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=57O:(4,6-DIHYDROXY-3,5-DIMETHYLPYRIDIN-2-YL)ACETIC+ACID'>57O</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3brc|3brc]], [[3bw0|3bw0]], [[3bw1|3bw1]], [[3bw2|3bw2]], [[5d5p|5d5p]]</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=5d5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d5q OCA], [https://pdbe.org/5d5q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d5q RCSB], [https://www.ebi.ac.uk/pdbsum/5d5q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d5q ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5d5q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d5q OCA], [http://pdbe.org/5d5q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d5q RCSB], [http://www.ebi.ac.uk/pdbsum/5d5q PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5d5q ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Y488_METJA Y488_METJA] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Ermler, U]] | + | [[Category: Methanocaldococcus jannaschii]] |
| - | [[Category: Fujishiro, T]] | + | [[Category: Ermler U]] |
| - | [[Category: Shima, S]] | + | [[Category: Fujishiro T]] |
| - | [[Category: Guanylyltransferase]] | + | [[Category: Shima S]] |
| - | [[Category: Transferase]]
| + | |
| Structural highlights
Function
Y488_METJA
Publication Abstract from PubMed
The greenhouse gas and energy carrier methane is produced on Earth mainly by methanogenic archaea. In the hydrogenotrophic methanogenic pathway the reduction of one CO2 to one methane molecule requires four molecules of H2 containing eight electrons. Four of the electrons from two H2 are supplied for reduction of an electron carrier F420, which is catalyzed by F420-reducing [NiFe]-hydrogenase under nickel-sufficient conditions. The same reaction is catalysed under nickel-limiting conditions by [Fe]-hydrogenase coupled with a reaction catalyzed by F420-dependent methylene tetrahydromethanopterin dehydrogenase. [Fe]-hydrogenase contains an iron-guanylylpyridinol (FeGP) cofactor for H2 activation at the active site. FeII of FeGP is coordinated to a pyridinol-nitrogen, an acyl-carbon, two CO and a cysteine-thiolate. We report here on comparative genomic analyses of biosynthetic genes of the FeGP cofactor, which are primarily located in a hmd-co-occurring (hcg) gene cluster. One of the gene products is HcgB which transfers the guanosine monophosphate (GMP) moiety from guanosine triphosphate (GTP) to a pyridinol precursor. Crystal structure analysis of HcgB from Methanococcus maripaludis and its complex with 6-carboxymethyl-3,5-dimethyl-4-hydroxy-2-pyridinol confirmed the physiological guanylyltransferase reaction. Furthermore, we tested the properties of semi-synthetic [Fe]-hydrogenases using the [Fe]-hydrogenase apoenzyme from several methanogenic archaea and a mimic of the FeGP cofactor. On the basis of the enzymatic reactions involved in the methanogenic pathway, we came up with an idea how the methanogenic pathway could be simplified to develop an artificial methanogenesis system.
Towards artificial methanogenesis: biosynthesis of the [Fe]-hydrogenase cofactor and characterization of the semi-synthetic hydrogenase.,Bai L, Fujishiro T, Huang G, Koch J, Takabayashi A, Yokono M, Tanaka A, Xu T, Hu X, Ermler U, Shima S Faraday Discuss. 2017 Mar 15. doi: 10.1039/c6fd00209a. PMID:28294213[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Bai L, Fujishiro T, Huang G, Koch J, Takabayashi A, Yokono M, Tanaka A, Xu T, Hu X, Ermler U, Shima S. Towards artificial methanogenesis: biosynthesis of the [Fe]-hydrogenase cofactor and characterization of the semi-synthetic hydrogenase. Faraday Discuss. 2017 Mar 15. doi: 10.1039/c6fd00209a. PMID:28294213 doi:http://dx.doi.org/10.1039/c6fd00209a
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