1ukb

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[[Image:1ukb.jpg|left|200px]]
[[Image:1ukb.jpg|left|200px]]
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{{Structure
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<!--
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|PDB= 1ukb |SIZE=350|CAPTION= <scene name='initialview01'>1ukb</scene>, resolution 1.80&Aring;
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The line below this paragraph, containing "STRUCTURE_1ukb", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/2-hydroxymuconate-semialdehyde_hydrolase 2-hydroxymuconate-semialdehyde hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.7.1.9 3.7.1.9] </span>
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or leave the SCENE parameter empty for the default display.
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|GENE= CUMD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=294 Pseudomonas fluorescens])
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-->
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|DOMAIN=
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{{STRUCTURE_1ukb| PDB=1ukb | SCENE= }}
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|RELATEDENTRY=[[1iun|1IUN]], [[1iuo|1IUO]], [[1iup|1IUP]], [[1uk6|1UK6]], [[1uk7|1UK7]], [[1uk8|1UK8]], [[1uk9|1UK9]], [[1uka|1UKA]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ukb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ukb OCA], [http://www.ebi.ac.uk/pdbsum/1ukb PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ukb RCSB]</span>
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}}
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'''Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with benzoate'''
'''Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with benzoate'''
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[[Category: Wakagi, T.]]
[[Category: Wakagi, T.]]
[[Category: Yamane, H.]]
[[Category: Yamane, H.]]
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[[Category: alpha/beta-hydrolase]]
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[[Category: Alpha/beta-hydrolase]]
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[[Category: aromatic compound]]
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[[Category: Aromatic compound]]
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[[Category: beta-ketolase]]
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[[Category: Beta-ketolase]]
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[[Category: cumene]]
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[[Category: Cumene]]
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[[Category: cumene degradation]]
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[[Category: Cumene degradation]]
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[[Category: isopropylbenzene]]
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[[Category: Isopropylbenzene]]
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[[Category: meta-cleavage compound hydrolase]]
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[[Category: Meta-cleavage compound hydrolase]]
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[[Category: pcb]]
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[[Category: Pcb]]
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[[Category: polychlorinated biphenyl degradation]]
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[[Category: Polychlorinated biphenyl degradation]]
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[[Category: pseudomonas fluorescens ip01]]
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[[Category: Pseudomonas fluorescens ip01]]
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[[Category: substrate specificity]]
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[[Category: Substrate specificity]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 11:20:50 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:11:25 2008''
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Revision as of 08:20, 3 May 2008

Image:1ukb.jpg

Template:STRUCTURE 1ukb

Crystal structure of a meta-cleavage product hydrolase (CumD) complexed with benzoate


Overview

Meta-cleavage product hydrolase (MCP-hydrolase) is one of the key enzymes in the microbial degradation of aromatic compounds. MCP-hydrolase produces 2-hydroxypenta-2,4-dienoate and various organic acids, according to the C6 substituent of the substrate. Comprehensive analysis of the substrate specificity of the MCP-hydrolase from Pseudomonas fluorescens IP01 (CumD) was carried out by determining the kinetic parameters for nine substrates and crystal structures complexed with eight cleavage products. CumD preferred substrates with long non-branched C6 substituents, but did not effectively hydrolyze a substrate with a phenyl group. Superimposition of the complex structures indicated that benzoate was bound in a significantly different direction than other aliphatic cleavage products. The directions of the bound organic acids appeared to be related with the k(cat) values of the corresponding substrates. The Ile139 and Trp143 residues on helix alpha4 appeared to cause steric hindrance with the aromatic ring of the substrate, which hampers base-catalyzed attack by water.

About this Structure

1UKB is a Single protein structure of sequence from Pseudomonas fluorescens. Full crystallographic information is available from OCA.

Reference

A series of crystal structures of a meta-cleavage product hydrolase from Pseudomonas fluorescens IP01 (CumD) complexed with various cleavage products., Fushinobu S, Jun SY, Hidaka M, Nojiri H, Yamane H, Shoun H, Omori T, Wakagi T, Biosci Biotechnol Biochem. 2005 Mar;69(3):491-8. PMID:15784976 Page seeded by OCA on Sat May 3 11:20:50 2008

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