Nandhagopal_2001_J.Mol.Biol_309_1139

Reference

Title : Crystal structure of 2-hydroxyl-6-oxo-6-phenylhexa-2,4-dienoic acid (HPDA) hydrolase (BphD enzyme) from the Rhodococcus sp. strain RHA1 of the PCB degradation pathway - Nandhagopal_2001_J.Mol.Biol_309_1139
Author(s) : Nandhagopal N , Yamada A , Hatta T , Masai E , Fukuda M , Mitsui Y , Senda T
Ref : Journal of Molecular Biology , 309 :1139 , 2001
Abstract :

2-Hydroxyl-6-oxo-6-phenylhexa-2,4-dienoic acid (HPDA) hydrolase (the BphD enzyme) hydrolyzes a ring-cleavage product of an aromatic compound generated in a biphenyl/polychlorinated biphenyl (PCB) degradation pathway of bacteria. The crystal structure of the BphD enzyme has been determined at 2.4 A resolution by the multiple isomorphous replacement method. The final refined model of the BphD enzyme yields an R-factor of 17.5 % at 2.4 A resolution with reasonable geometry. The BphD enzyme is an octameric enzyme with a 422 point-group symmetry. The subunit can be divided into core and lid domains. The active site of the enzyme is situated in the substrate-binding pocket, which is located between the two domains. The substrate-binding pocket can be divided into hydrophobic and hydrophilic regions. This feature of the pocket seems to be necessary for substrate binding, as the substrate is composed of hydrophilic and hydrophobic parts. The proposed orientation of the substrate seems to be consistent with the general catalytic mechanism of alpha/beta-hydrolases.

PubMedSearch : Nandhagopal_2001_J.Mol.Biol_309_1139
PubMedID: 11399084
Gene_locus related to this paper: rhosp-bphd

Related information

Gene_locus rhosp-bphd
Structure rhosp-bphd    1C4X

Citations formats

Nandhagopal N, Yamada A, Hatta T, Masai E, Fukuda M, Mitsui Y, Senda T (2001)
Crystal structure of 2-hydroxyl-6-oxo-6-phenylhexa-2,4-dienoic acid (HPDA) hydrolase (BphD enzyme) from the Rhodococcus sp. strain RHA1 of the PCB degradation pathway
Journal of Molecular Biology 309 :1139

Nandhagopal N, Yamada A, Hatta T, Masai E, Fukuda M, Mitsui Y, Senda T (2001)
Journal of Molecular Biology 309 :1139