title: Crystal structures of dye-decolorizing peroxidase with ascorbic acid and 2,6-dimethoxyphenol.
abstract: The structure of dye-decolorizing peroxidase (DyP)-type peroxidase differs from that of other peroxidase families, indicating that DyP-type peroxidases have a different reaction mechanism. We have determined the crystal structures of DyP with ascorbic acid and 2,6-dimethoxyphenol at 1.5 and 1.4Å, respectively. The common binding site for both substrates was located at the entrance of the second cavity leading from the DyP molecular surface to heme. This resulted in a hydrogen bond network connection between each substrate and the heme distal side. This network consisted of water molecules occupying the second cavity, heme 6-propionate, Arg329, and Asn313. This network is consistent with the proton transfer pathway from substrate to DyP.
authors.affiliation: Chemical Resources Laboratory, Tokyo Institute of Technology, R1-8, 4259 Nagatsuta, Yokohama 226-8503, Japan.
authors.forename: Toru
authors.initials: T
authors.lastname: Yoshida
authors.forename: Hideaki
authors.initials: H
authors.lastname: Tsuge
authors.forename: Toru
authors.initials: T
authors.lastname: Hisabori
authors.forename: Yasushi
authors.initials: Y
authors.lastname: Sugano
mesh_terms: D001120:Arginine / Q000737:chemistry; D001205:Ascorbic Acid / Q000737:chemistry*; D001216:Asparagine / Q000737:chemistry; D001665:Binding Sites; D004396:Coloring Agents / Q000737:chemistry*; D018360:Crystallography, X-Ray; D006418:Heme / Q000737:chemistry; D006420:Hemeproteins / Q000737:chemistry*; D006860:Hydrogen Bonding; D009195:Peroxidase / Q000737:chemistry*; D017434:Protein Structure, Tertiary; D011748:Pyrogallol / Q000031:analogs & derivatives* / Q000737:chemistry; D013379:Substrate Specificity; D014867:Water / Q000737:chemistry
chemical_list: D004396:Coloring Agents; D006420:Hemeproteins; D011748:Pyrogallol; D014867:Water; D006418:Heme; C010120:pyrogallol 1,3-dimethyl ether; D001216:Asparagine; D001120:Arginine; D009195:Peroxidase; D001205:Ascorbic Acid