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3rkr

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Current revision (12:28, 14 March 2024) (edit) (undo)
 
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<StructureSection load='3rkr' size='340' side='right'caption='[[3rkr]], [[Resolution|resolution]] 2.42&Aring;' scene=''>
<StructureSection load='3rkr' size='340' side='right'caption='[[3rkr]], [[Resolution|resolution]] 2.42&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3rkr]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Uncultured_bacterium_bio5 Uncultured bacterium bio5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RKR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RKR FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3rkr]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Uncultured_bacterium_Bio5 Uncultured bacterium Bio5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RKR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RKR FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.42&#8491;</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/3-oxoacyl-[acyl-carrier-protein]_reductase 3-oxoacyl-[acyl-carrier-protein] reductase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.100 1.1.1.100] </span></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=3rkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rkr OCA], [https://pdbe.org/3rkr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rkr RCSB], [https://www.ebi.ac.uk/pdbsum/3rkr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rkr 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=3rkr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rkr OCA], [https://pdbe.org/3rkr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rkr RCSB], [https://www.ebi.ac.uk/pdbsum/3rkr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rkr ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/B2BKB1_9BACT B2BKB1_9BACT]
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In Pseudomonas aeruginosa, the expression of a number of virulence factors, as well as biofilm formation, are controlled by quorum sensing (QS). N-Acylhomoserine lactones (AHLs) are an important class of signaling molecules involved in bacterial QS and in many pathogenic bacteria infection and host colonization are AHL-dependent. The AHL signaling molecules are subject to inactivation mainly by hydrolases (Enzyme Commission class number EC 3) (i.e. N-acyl-homoserine lactonases and N-acyl-homoserine-lactone acylases). Only little is known on quorum quenching mechanisms of oxidoreductases (EC 1). Here we report on the identification and structural characterization of the first NADP-dependent short-chain dehydrogenase/reductase (SDR) involved in inactivation of N-(3-oxo-dodecanoyl)-L-homoserine lactone (3-oxo-C(12)-HSL) and derived from a metagenome library. The corresponding gene was isolated from a soil metagenome and designated bpiB09. Heterologous expression and crystallographic studies established BpiB09 as an NADP-dependent reductase. Although AHLs are probably not the native substrate of this metagenome-derived enzyme, its expression in P. aeruginosa PAO1 resulted in significantly reduced pyocyanin production, decreased motility, poor biofilm formation and absent paralysis of Caenorhabditis elegans. Furthermore, a genome-wide transcriptome study suggested that the level of lasI and rhlI transcription together with 36 well known QS regulated genes was significantly (&gt;/=10-fold) affected in P. aeruginosa strains expressing the bpiB09 gene in pBBR1MCS-5. Thus AHL oxidoreductases could be considered as potent tools for the development of quorum quenching strategies.
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A novel metagenomic short-chain dehydrogenase/reductase attenuates Pseudomonas aeruginosa biofilm formation and virulence on Caenorhabditis elegans.,Bijtenhoorn P, Mayerhofer H, Muller-Dieckmann J, Utpatel C, Schipper C, Hornung C, Szesny M, Grond S, Thurmer A, Brzuszkiewicz E, Daniel R, Dierking K, Schulenburg H, Streit WR PLoS One. 2011;6(10):e26278. Epub 2011 Oct 26. PMID:22046268<ref>PMID:22046268</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3rkr" 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]]
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[[Category: Uncultured bacterium bio5]]
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[[Category: Uncultured bacterium Bio5]]
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[[Category: Bijtenhoorn, P]]
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[[Category: Bijtenhoorn P]]
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[[Category: Mayerhofer, H]]
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[[Category: Mayerhofer H]]
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[[Category: Mueller-Dieckmann, J]]
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[[Category: Mueller-Dieckmann J]]
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[[Category: Streit, W R]]
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[[Category: Streit WR]]
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[[Category: Oxidoreductase]]
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[[Category: Rossmann fold]]
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Current revision

Crystal structure of a metagenomic short-chain oxidoreductase (SDR) in complex with NADP

PDB ID 3rkr

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