2og1
From Proteopedia
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| - | [[Image:2og1.gif|left|200px]] | + | [[Image:2og1.gif|left|200px]] |
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| - | '''Crystal Structure of BphD, a C-C hydrolase from Burkholderia xenovorans LB400''' | + | {{Structure |
| + | |PDB= 2og1 |SIZE=350|CAPTION= <scene name='initialview01'>2og1</scene>, resolution 1.600Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene> and <scene name='pdbligand=EOH:ETHANOL'>EOH</scene> | ||
| + | |ACTIVITY= [http://en.wikipedia.org/wiki/2,6-dioxo-6-phenylhexa-3-enoate_hydrolase 2,6-dioxo-6-phenylhexa-3-enoate hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.7.1.8 3.7.1.8] | ||
| + | |GENE= bphD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=36873 Burkholderia xenovorans]) | ||
| + | }} | ||
| + | |||
| + | '''Crystal Structure of BphD, a C-C hydrolase from Burkholderia xenovorans LB400''' | ||
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==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 2OG1 is a [ | + | 2OG1 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Burkholderia_xenovorans Burkholderia xenovorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OG1 OCA]. |
==Reference== | ==Reference== | ||
| - | Kinetic and structural insight into the mechanism of BphD, a C-C bond hydrolase from the biphenyl degradation pathway., Horsman GP, Ke J, Dai S, Seah SY, Bolin JT, Eltis LD, Biochemistry. 2006 Sep 19;45(37):11071-86. PMID:[http:// | + | Kinetic and structural insight into the mechanism of BphD, a C-C bond hydrolase from the biphenyl degradation pathway., Horsman GP, Ke J, Dai S, Seah SY, Bolin JT, Eltis LD, Biochemistry. 2006 Sep 19;45(37):11071-86. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16964968 16964968] |
[[Category: 2,6-dioxo-6-phenylhexa-3-enoate hydrolase]] | [[Category: 2,6-dioxo-6-phenylhexa-3-enoate hydrolase]] | ||
[[Category: Burkholderia xenovorans]] | [[Category: Burkholderia xenovorans]] | ||
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[[Category: pcb degradation]] | [[Category: pcb degradation]] | ||
| - | ''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 17:59:12 2008'' |
Revision as of 15:59, 20 March 2008
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| , resolution 1.600Å | |||||||
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| Ligands: | , and | ||||||
| Gene: | bphD (Burkholderia xenovorans) | ||||||
| Activity: | 2,6-dioxo-6-phenylhexa-3-enoate hydrolase, with EC number 3.7.1.8 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of BphD, a C-C hydrolase from Burkholderia xenovorans LB400
Overview
Kinetic and structural analyses of 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoic acid (HOPDA) hydrolase from Burkholderia xenovorans LB400 (BphD(LB400)) provide insight into the catalytic mechanism of this unusual serine hydrolase. Single turnover stopped-flow analysis at 25 degrees C showed that the enzyme rapidly (1/tau(1) approximately 500 s(-1)) transforms HOPDA (lambda(max) = 434 nm) into a species with electronic absorption maxima at 473 and 492 nm. The absorbance of this enzyme-bound species (E:S) decayed in a biphasic manner (1/tau(2) = 54 s(-1), 1/tau(3) = 6 s(-1) approximately k(cat)) with simultaneous biphasic appearance (48 and 8 s(-1)) of an absorbance band at 270 nm characteristic of one of the products, 2-hydroxypenta-2,4-dienoic acid (HPD). Increasing solution viscosity with glycerol slowed 1/tau(1) and 1/tau(2) but affected neither 1/tau(3) nor k(cat), suggesting that 1/tau(2) may reflect diffusive HPD dissociation, and 1/tau(3) represents an intramolecular event. Product inhibition studies suggested that the other product, benzoate, is released after HPD. Contrary to studies in a related hydrolase, we found no evidence that ketonized HOPDA is partially released prior to hydrolysis, and, therefore, postulate that the biphasic kinetics reflect one of two mechanisms, pending assignment of E:S (lambda(max) = 492 nm). The crystal structures of the wild type, the S112C variant, and S112C incubated with HOPDA were each determined to 1.6 A resolution. The latter reveals interactions between conserved active site residues and the dienoate moiety of the substrate. Most notably, the catalytic residue His265 is hydrogen-bonded to the 2-hydroxy/oxo substituent of HOPDA, consistent with a role in catalyzing ketonization. The data are more consistent with an acyl-enzyme mechanism than with the formation of a gem-diol intermediate.
About this Structure
2OG1 is a Single protein structure of sequence from Burkholderia xenovorans. Full crystallographic information is available from OCA.
Reference
Kinetic and structural insight into the mechanism of BphD, a C-C bond hydrolase from the biphenyl degradation pathway., Horsman GP, Ke J, Dai S, Seah SY, Bolin JT, Eltis LD, Biochemistry. 2006 Sep 19;45(37):11071-86. PMID:16964968
Page seeded by OCA on Thu Mar 20 17:59:12 2008
Categories: 2,6-dioxo-6-phenylhexa-3-enoate hydrolase | Burkholderia xenovorans | Single protein | Bolin, J T. | Dai, S. | Ke, J. | EOH | GOL | SO4 | 2-hydroxy-6-oxo-6-phenylhexa-2 | 4-dienoate hydrolase | Alpha/beta hydrolase | Bphd | Mcp hydrolase | Meta cleavage product hydrolase | Pcb degradation
