2r2d
From Proteopedia
(Difference between revisions)
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| - | [[Image:2r2d.jpg|left|200px]] | + | [[Image:2r2d.jpg|left|200px]] |
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| - | '''Structure of a quorum-quenching lactonase (AiiB) from Agrobacterium tumefaciens''' | + | {{Structure |
| + | |PDB= 2r2d |SIZE=350|CAPTION= <scene name='initialview01'>2r2d</scene>, resolution 1.75Å | ||
| + | |SITE= <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> | ||
| + | |LIGAND= <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene> and <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= attM ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=358 Agrobacterium tumefaciens]) | ||
| + | }} | ||
| + | |||
| + | '''Structure of a quorum-quenching lactonase (AiiB) from Agrobacterium tumefaciens''' | ||
| + | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 2R2D is a [ | + | 2R2D is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R2D OCA]. |
==Reference== | ==Reference== | ||
| - | 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 Oct 23;46(42):11789-99. Epub 2007 Sep 28. PMID:[http:// | + | 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 Oct 23;46(42):11789-99. Epub 2007 Sep 28. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17900178 17900178] |
[[Category: Agrobacterium tumefaciens]] | [[Category: Agrobacterium tumefaciens]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: PO4]] | [[Category: PO4]] | ||
[[Category: ZN]] | [[Category: ZN]] | ||
| - | [[Category: agrobacterium | + | [[Category: agrobacterium tumefacien]] |
[[Category: aiib]] | [[Category: aiib]] | ||
[[Category: di-nuclear zinc center]] | [[Category: di-nuclear zinc center]] | ||
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[[Category: quorum quenching]] | [[Category: quorum quenching]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:31:54 2008'' |
Revision as of 16:31, 20 March 2008
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| , resolution 1.75Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , and | ||||||
| Ligands: | , and | ||||||
| Gene: | attM (Agrobacterium tumefaciens) | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Structure of a quorum-quenching lactonase (AiiB) from Agrobacterium tumefaciens
Overview
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.
About this Structure
2R2D is a Single protein structure of sequence from Agrobacterium tumefaciens. Full crystallographic information is available from OCA.
Reference
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 Oct 23;46(42):11789-99. Epub 2007 Sep 28. PMID:17900178
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