Hisano_2006_J.Mol.Biol_356_993

Reference

Title : The crystal structure of polyhydroxybutyrate depolymerase from Penicillium funiculosum provides insights into the recognition and degradation of biopolyesters - Hisano_2006_J.Mol.Biol_356_993
Author(s) : Hisano T , Kasuya K , Tezuka Y , Ishii N , Kobayashi T , Shiraki M , Oroudjev E , Hansma H , Iwata T , Doi Y , Saito T , Miki K
Ref : Journal of Molecular Biology , 356 :993 , 2006
Abstract :

Polyhydroxybutyrate is a microbial polyester that can be produced from renewable resources, and is degraded by the enzyme polyhydroxybutyrate depolymerase. The crystal structures of polyhydroxybutyrate depolymerase from Penicillium funiculosum and its S39 A mutant complexed with the methyl ester of a trimer substrate of (R)-3-hydroxybutyrate have been determined at resolutions of 1.71 A and 1.66 A, respectively. The enzyme is comprised of a single domain, which represents a circularly permuted variant of the alpha/beta hydrolase fold. The catalytic residues Ser39, Asp121, and His155 are located at topologically conserved positions. The main chain amide groups of Ser40 and Cys250 form an oxyanion hole. A crevice is formed on the surface of the enzyme, to which a single polymer chain can be bound by predominantly hydrophobic interactions with several hydrophobic residues. The structure of the S39A mutant-trimeric substrate complex reveals that Trp307 is responsible for the recognition of the ester group adjacent to the scissile group. It is also revealed that the substrate-binding site includes at least three, and possibly four, subsites for binding monomer units of polyester substrates. Thirteen hydrophobic residues, which are exposed to solvent, are aligned around the mouth of the crevice, forming a putative adsorption site for the polymer surface. These residues may contribute to the sufficient binding affinity of the enzyme for PHB granules without a distinct substrate-binding domain.

PubMedSearch : Hisano_2006_J.Mol.Biol_356_993
PubMedID: 16405909
Gene_locus related to this paper: penfu-PHAZ

Related information

Substrate RB3    PHB
Gene_locus RB3    PHB    penfu-PHAZ
Family RB3    PHB    penfu-PHAZ    Esterase_phb_PHAZ
Structure RB3    PHB    penfu-PHAZ    Esterase_phb_PHAZ    2D80    2D81

Citations formats

Hisano T, Kasuya K, Tezuka Y, Ishii N, Kobayashi T, Shiraki M, Oroudjev E, Hansma H, Iwata T, Doi Y, Saito T, Miki K (2006)
The crystal structure of polyhydroxybutyrate depolymerase from Penicillium funiculosum provides insights into the recognition and degradation of biopolyesters
Journal of Molecular Biology 356 :993

Hisano T, Kasuya K, Tezuka Y, Ishii N, Kobayashi T, Shiraki M, Oroudjev E, Hansma H, Iwata T, Doi Y, Saito T, Miki K (2006)
Journal of Molecular Biology 356 :993