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| [[Image:2r2d.jpg|left|200px]]<br /><applet load="2r2d" size="350" color="white" frame="true" align="right" spinBox="true"
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| caption="2r2d, resolution 1.75Å" />
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| '''Structure of a quorum-quenching lactonase (AiiB) from Agrobacterium tumefaciens'''<br />
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| ==Overview== | | ==Structure of a quorum-quenching lactonase (AiiB) from Agrobacterium tumefaciens== |
| N-Acyl-l-homoserine lactone (AHL) mediated quorum-sensing regulates, virulence factor production in a variety of Gram-negative bacteria., Proteins capable of degrading these autoinducers have been called, "quorum-quenching" enzymes, can block many quorum-sensing dependent, phenotypes, and represent potentially useful reagents for clinical, agricultural, and industrial applications. The most characterized, quorum-quenching enzymes to date are the AHL lactonases, which are, metalloproteins that belong to the metallo-beta-lactamase superfamily., Here, we report the cloning, heterologous expression, purification, metal, content, substrate specificity, and three-dimensional structure of AiiB, an AHL lactonase from Agrobacterium tumefaciens. Much like a homologous, AHL lactonase from Bacillus thuringiensis, AiiB appears to be a, metal-dependent AHL lactonase with broad specificity. A phosphate dianion, is bound to the dinuclear zinc site and the active-site structure suggests, specific mechanistic roles for an active site tyrosine and aspartate. To, our knowledge, this is the second representative structure of an AHL, lactonase and the first of an AHL lactonase from a microorganism that also, produces AHL autoinducers. This work should help elucidate the hydrolytic, ring-opening mechanism of this family of enzymes and also facilitate the, design of more effective quorum-quenching catalysts.
| | <StructureSection load='2r2d' size='340' side='right'caption='[[2r2d]], [[Resolution|resolution]] 1.75Å' scene=''> |
| | | == Structural highlights == |
| ==About this Structure== | | <table><tr><td colspan='2'>[[2r2d]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R2D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2R2D FirstGlance]. <br> |
| 2R2D is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens] with <scene name='pdbligand=ZN:'>ZN</scene>, <scene name='pdbligand=PO4:'>PO4</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Sites: <scene name='pdbsite=AC1:Zn+Binding+Site+For+Residue+A+277'>AC1</scene>, <scene name='pdbsite=AC2:Zn+Binding+Site+For+Residue+A+278'>AC2</scene>, <scene name='pdbsite=AC3:Zn+Binding+Site+For+Residue+B+277'>AC3</scene>, <scene name='pdbsite=AC4:Zn+Binding+Site+For+Residue+B+278'>AC4</scene>, <scene name='pdbsite=AC5:Zn+Binding+Site+For+Residue+C+277'>AC5</scene>, <scene name='pdbsite=AC6:Zn+Binding+Site+For+Residue+C+278'>AC6</scene>, <scene name='pdbsite=AC7:Zn+Binding+Site+For+Residue+D+277'>AC7</scene>, <scene name='pdbsite=AC8:Zn+Binding+Site+For+Residue+D+278'>AC8</scene>, <scene name='pdbsite=AC9:Zn+Binding+Site+For+Residue+E+277'>AC9</scene>, <scene name='pdbsite=BC1:Zn+Binding+Site+For+Residue+E+278'>BC1</scene>, <scene name='pdbsite=BC2:Zn+Binding+Site+For+Residue+F+277'>BC2</scene>, <scene name='pdbsite=BC3:Zn+Binding+Site+For+Residue+F+278'>BC3</scene>, <scene name='pdbsite=BC4:Po4+Binding+Site+For+Residue+A+279'>BC4</scene>, <scene name='pdbsite=BC5:Po4+Binding+Site+For+Residue+E+279'>BC5</scene>, <scene name='pdbsite=BC6:Po4+Binding+Site+For+Residue+B+279'>BC6</scene>, <scene name='pdbsite=BC7:Po4+Binding+Site+For+Residue+C+279'>BC7</scene>, <scene name='pdbsite=BC8:Po4+Binding+Site+For+Residue+D+279'>BC8</scene>, <scene name='pdbsite=BC9:Po4+Binding+Site+For+Residue+F+279'>BC9</scene>, <scene name='pdbsite=CC1:Po4+Binding+Site+For+Residue+C+280'>CC1</scene>, <scene name='pdbsite=CC2:Po4+Binding+Site+For+Residue+E+280'>CC2</scene>, <scene name='pdbsite=CC3:Po4+Binding+Site+For+Residue+B+280'>CC3</scene>, <scene name='pdbsite=CC4:Gol+Binding+Site+For+Residue+C+281'>CC4</scene>, <scene name='pdbsite=CC5:Gol+Binding+Site+For+Residue+A+280'>CC5</scene>, <scene name='pdbsite=CC6:Gol+Binding+Site+For+Residue+E+281'>CC6</scene>, <scene name='pdbsite=CC7:Gol+Binding+Site+For+Residue+B+281'>CC7</scene>, <scene name='pdbsite=CC8:Gol+Binding+Site+For+Residue+D+280'>CC8</scene>, <scene name='pdbsite=CC9:Gol+Binding+Site+For+Residue+F+280'>CC9</scene>, <scene name='pdbsite=DC1:Gol+Binding+Site+For+Residue+A+281'>DC1</scene>, <scene name='pdbsite=DC2:Gol+Binding+Site+For+Residue+A+282'>DC2</scene>, <scene name='pdbsite=DC3:Gol+Binding+Site+For+Residue+C+282'>DC3</scene> and <scene name='pdbsite=DC4:Gol+Binding+Site+For+Residue+B+282'>DC4</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R2D OCA].
| | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.75Å</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=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| ==Reference==
| | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2r2d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2r2d OCA], [https://pdbe.org/2r2d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2r2d RCSB], [https://www.ebi.ac.uk/pdbsum/2r2d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2r2d ProSAT]</span></td></tr> |
| Structure and Specificity of a Quorum-Quenching Lactonase (AiiB) from Agrobacterium tumefaciens(,)., Liu D, Thomas PW, Momb J, Hoang QQ, Petsko GA, Ringe D, Fast W, Biochemistry. 2007 Sep 28;. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17900178 17900178]
| | </table> |
| [[Category: Agrobacterium tumefaciens]] | | == Function == |
| [[Category: Single protein]] | | [https://www.uniprot.org/uniprot/AHLLB_AGRFC AHLLB_AGRFC] |
| [[Category: Fast, W.]] | | == Evolutionary Conservation == |
| [[Category: Hoang, Q.]] | | [[Image:Consurf_key_small.gif|200px|right]] |
| [[Category: Liu, D.]] | | Check<jmol> |
| [[Category: Momb, J.]] | | <jmolCheckbox> |
| [[Category: Petsko, G.A.]] | | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/r2/2r2d_consurf.spt"</scriptWhenChecked> |
| [[Category: Ringe, D.]] | | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> |
| [[Category: Thomas, P.W.]] | | <text>to colour the structure by Evolutionary Conservation</text> |
| [[Category: GOL]]
| | </jmolCheckbox> |
| [[Category: PO4]]
| | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2r2d ConSurf]. |
| [[Category: ZN]]
| | <div style="clear:both"></div> |
| [[Category: agrobacterium tumefaciens]]
| | __TOC__ |
| [[Category: aiib]]
| | </StructureSection> |
| [[Category: di-nuclear zinc center]]
| | [[Category: Agrobacterium fabrum str. C58]] |
| [[Category: hydrolase]]
| | [[Category: Large Structures]] |
| [[Category: lactonase]]
| | [[Category: Fast W]] |
| [[Category: n-acyl hompserine lactone]]
| | [[Category: Hoang Q]] |
| [[Category: phosphate]]
| | [[Category: Liu D]] |
| [[Category: quorum quenching]]
| | [[Category: Momb J]] |
| | | [[Category: Petsko GA]] |
| ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 6 17:29:06 2008''
| | [[Category: Ringe D]] |
| | [[Category: Thomas PW]] |
