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| | <StructureSection load='6c4t' size='340' side='right'caption='[[6c4t]], [[Resolution|resolution]] 2.49Å' scene=''> | | <StructureSection load='6c4t' size='340' side='right'caption='[[6c4t]], [[Resolution|resolution]] 2.49Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6c4t]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C4T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6C4T FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6c4t]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6C4T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6C4T FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA7:[(2R,3R,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3-HYDROXY-4-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4S)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>NA7</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]] 2.49Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">AB466_12420, AB526_12775, AFP37_00945, APW47_05390 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA7:[(2R,3R,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3-HYDROXY-4-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]METHYL+[(2R,3S,4S)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+DIHYDROGEN+DIPHOSPHATE'>NA7</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=6c4t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c4t OCA], [http://pdbe.org/6c4t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6c4t RCSB], [http://www.ebi.ac.uk/pdbsum/6c4t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6c4t 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=6c4t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6c4t OCA], [https://pdbe.org/6c4t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6c4t RCSB], [https://www.ebi.ac.uk/pdbsum/6c4t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6c4t ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/ODH_STAAM ODH_STAAM] Catalyzes the NADPH-dependent reductive condensation of pyruvate to the intermediate formed by the adjacently encoded enzyme CntL, namely (2S)-2-amino-4-{[(1R)-1-carboxy-2-(1H-imidazol-4-yl)ethyl]amino}butanoate, leading to the production of staphylopine. This is the last step in the biosynthesis of the metallophore staphylopine, which is involved in the acquisition of nickel, cobalt, zinc, copper, and iron, and thus enables bacterial growth inside the host, where metal access is limited. Therefore, this enzyme probably contributes to staphylococcal virulence. Can use neither NADH nor alpha-ketoglutarate in place of NADPH and pyruvate, respectively.<ref>PMID:27230378</ref> <ref>PMID:29091735</ref> <ref>PMID:29618515</ref> |
| | <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: Davis, C L]] | + | [[Category: Staphylococcus aureus]] |
| - | [[Category: Lamb, A L]] | + | [[Category: Davis CL]] |
| - | [[Category: McFarlane, J S]] | + | [[Category: Lamb AL]] |
| - | [[Category: Opine dehydrogenase metallophore siderophore yersinopine pseudopaline staphylopine]] | + | [[Category: McFarlane JS]] |
| - | [[Category: Oxidoreductase]]
| + | |
| Structural highlights
Function
ODH_STAAM Catalyzes the NADPH-dependent reductive condensation of pyruvate to the intermediate formed by the adjacently encoded enzyme CntL, namely (2S)-2-amino-4-{[(1R)-1-carboxy-2-(1H-imidazol-4-yl)ethyl]amino}butanoate, leading to the production of staphylopine. This is the last step in the biosynthesis of the metallophore staphylopine, which is involved in the acquisition of nickel, cobalt, zinc, copper, and iron, and thus enables bacterial growth inside the host, where metal access is limited. Therefore, this enzyme probably contributes to staphylococcal virulence. Can use neither NADH nor alpha-ketoglutarate in place of NADPH and pyruvate, respectively.[1] [2] [3]
Publication Abstract from PubMed
Opine dehydrogenases (ODH) from the bacterial pathogens Staphylococcus aureus, Pseudomonas aeruginosa, and Yersinia pestis perform the final enzymatic step in the biosynthesis of a new class of opine metallophores, which includes staphylopine, pseudopaline, and yersinopine, respectively. Growing evidence indicates the important role of this pathway in metal acquisition and virulence, including in lung and burn wound infections (P. aeruginosa) and in blood and heart infections (S. aureus). Here, we present a kinetic and structural characterization of these three opine dehydrogenases. A steady-state kinetic analysis revealed that the three enzymes differ in 6;-keto acid and NAD(P)H substrate specificity, and nicotianamine-like substrate stereoselectivity. To explore the structural basis for these differences, we solved five ODH X-ray crystal structures, ranging in resolution from 1.9 A to 2.5 A, with or without NADP(+) bound. Variation in hydrogen bonding with NADPH suggested an explanation for the differential recognition of this substrate by these three enzymes. Our analysis further revealed candidate residues in the active sites required for binding of the 6;-keto acid and nicotianamine-like substrates and for catalysis. This work reports structural and kinetic analyses of enzymes involved in opine metallophore biosynthesis in three important bacterial pathogens of humans.
Staphylopine, pseudopaline and yersinopine dehydrogenases: a structural and kinetic analysis of a new functional class of opine dehydrogenase.,McFarlane JS, Davis CL, Lamb AL J Biol Chem. 2018 Apr 4. pii: RA118.002007. doi: 10.1074/jbc.RA118.002007. PMID:29618515[4]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Ghssein G, Brutesco C, Ouerdane L, Fojcik C, Izaute A, Wang S, Hajjar C, Lobinski R, Lemaire D, Richaud P, Voulhoux R, Espaillat A, Cava F, Pignol D, Borezée-Durant E, Arnoux P. Biosynthesis of a broad-spectrum nicotianamine-like metallophore in Staphylococcus aureus. Science. 2016 May 27;352(6289):1105-9. PMID:27230378 doi:10.1126/science.aaf1018
- ↑ McFarlane JS, Lamb AL. Biosynthesis of an Opine Metallophore by Pseudomonas aeruginosa. Biochemistry. 2017 Nov 14;56(45):5967-5971. PMID:29091735 doi:10.1021/acs.biochem.7b00804
- ↑ McFarlane JS, Davis CL, Lamb AL. Staphylopine, pseudopaline and yersinopine dehydrogenases: a structural and kinetic analysis of a new functional class of opine dehydrogenase. J Biol Chem. 2018 Apr 4. pii: RA118.002007. doi: 10.1074/jbc.RA118.002007. PMID:29618515 doi:http://dx.doi.org/10.1074/jbc.RA118.002007
- ↑ McFarlane JS, Davis CL, Lamb AL. Staphylopine, pseudopaline and yersinopine dehydrogenases: a structural and kinetic analysis of a new functional class of opine dehydrogenase. J Biol Chem. 2018 Apr 4. pii: RA118.002007. doi: 10.1074/jbc.RA118.002007. PMID:29618515 doi:http://dx.doi.org/10.1074/jbc.RA118.002007
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