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| <StructureSection load='5hxi' size='340' side='right'caption='[[5hxi]], [[Resolution|resolution]] 1.50Å' scene=''> | | <StructureSection load='5hxi' size='340' side='right'caption='[[5hxi]], [[Resolution|resolution]] 1.50Å' scene=''> |
| == Structural highlights == | | == Structural highlights == |
- | <table><tr><td colspan='2'>[[5hxi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mesorhizobium_japonicum_(strain_lmg_29417_/_cect_9101_/_maff_303099) Mesorhizobium japonicum (strain lmg 29417 / cect 9101 / maff 303099)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HXI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HXI FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5hxi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mesorhizobium_japonicum_MAFF_303099 Mesorhizobium japonicum MAFF 303099]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HXI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HXI FirstGlance]. <br> |
- | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=5HN:5-HYDROXYPYRIDINE-3-CARBOXYLIC+ACID'>5HN</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5Å</td></tr> |
- | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">mlr6788 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266835 Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099)])</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5HN:5-HYDROXYPYRIDINE-3-CARBOXYLIC+ACID'>5HN</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></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=5hxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hxi OCA], [http://pdbe.org/5hxi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hxi RCSB], [http://www.ebi.ac.uk/pdbsum/5hxi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hxi 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=5hxi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hxi OCA], [https://pdbe.org/5hxi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hxi RCSB], [https://www.ebi.ac.uk/pdbsum/5hxi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hxi ProSAT]</span></td></tr> |
| </table> | | </table> |
| + | == Function == |
| + | [https://www.uniprot.org/uniprot/Q988D3_RHILO Q988D3_RHILO] |
| <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: Kobayashi, J]] | + | [[Category: Mesorhizobium japonicum MAFF 303099]] |
- | [[Category: Mikami, B]] | + | [[Category: Kobayashi J]] |
- | [[Category: Alpha/beta fold]] | + | [[Category: Mikami B]] |
- | [[Category: Flavoenzyme]]
| + | |
- | [[Category: Oxidoreductase]]
| + | |
- | [[Category: Substrate complex]]
| + | |
| Structural highlights
5hxi is a 1 chain structure with sequence from Mesorhizobium japonicum MAFF 303099. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| Method: | X-ray diffraction, Resolution 1.5Å |
Ligands: | , , , , , |
Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Function
Q988D3_RHILO
Publication Abstract from PubMed
The flavoenzyme 2-Methyl-3-hydroxypyridine-5-carboxylic acid oxygenase (MHPCO) catalyzes the cleavage of the pyridine ring of 2-methyl-3-hydroxypyridine-5-carboxylic acid (MHPC) in the presence of NADH, molecular oxygen, and water. MHPCO also catalyzes the NADH oxidation reaction uncoupled with ring opening in the absence of MHPC (the basal activity). The enzyme shows activity toward not only MHPC but also 5-hydroxynicotinic acid (5HN) and 5-pyridoxic acid (5PA). The reaction rate toward 5PA is extremely low (5% of the activity toward MHPC or 5HN). We determined the crystal structures of MHPCO without substrate and the MHPCO/5HN and MHPCO/5PA complexes, together with a Y270F mutant without substrate and its 5HN complex. The Tyr270 residue was located in the active site and formed hydrogen bonds between the Oeta and water molecules to make the active site hydrophilic. Although Tyr270 took a fixed conformation in the structures of the MHPCO and MHPCO/5HN complex, it took two conformations in its 5PA complex, accompanied by two conformations of the bound 5PA. In the wild-type (WT) enzyme, the turnover number of the ring-opening activity was 6800 times that of the basal activity (1300 and 0.19 s-1, respectively), whereas no such difference was observed in the Y270F (19 and 7.4 s-1) or Y270A (0.05 and 0.84 s-1) mutants. In the Y270F/5HN complex, the substrate bound approximately 1 A farther away than in the WT enzyme. These results revealed that Tyr270 is essential to maintain the WT conformation, which in turn enhances the coupling of the NADH oxidation with the ring-opening reaction.
Role of the Tyr270 residue in 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase from Mesorhizobium loti.,Kobayashi J, Yoshida H, Yagi T, Kamitori S, Hayashi H, Mizutani K, Takahashi N, Mikami B J Biosci Bioeng. 2016 Aug 24. pii: S1389-1723(16)30193-1. doi:, 10.1016/j.jbiosc.2016.07.022. PMID:27568368[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Kobayashi J, Yoshida H, Yagi T, Kamitori S, Hayashi H, Mizutani K, Takahashi N, Mikami B. Role of the Tyr270 residue in 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase from Mesorhizobium loti. J Biosci Bioeng. 2016 Aug 24. pii: S1389-1723(16)30193-1. doi:, 10.1016/j.jbiosc.2016.07.022. PMID:27568368 doi:http://dx.doi.org/10.1016/j.jbiosc.2016.07.022
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