Database for Polyphenol Utilized Proteins from gut microbiota
View sequence similarity network


Family Sequences

Literature Information

Title Enzymatic carboxylation of hydroxystilbenes by the γ-resorcylic acid decarboxylase from Rhizobium radiobacter WU-0108 under reverse reaction conditions
Author Masaru Sato, Nozomu Sakurai, Hideyuki Suzuki, Daisuke Shibata, Kuniki Kino
DOI 10.1016/j.molcatb.2015.10.006
Abstract We examined 66 aromatics for carboxylation by the γ-resorcylic acid decarboxylase from Rhizobium radiobacter WU-0108 under reverse reaction conditions. The enzyme carboxylated resorcinol, catechol, 5-methylresorcinol and three hydroxystilbenes (resveratrol, gnetol, and piceatannol) with high yields. Except for catechol, the structures of these substrates include a 1,3-dihydroxybenzene moiety. Other compounds gave no reaction products. The reaction products from resveratrol and gnetol were 2,6-dihydroxy-4-[(E)-2-(4-hydroxyphenyl)ethenyl]benzoic acid and 2,6-dihydroxy-4-[(E)-2-(2,6-dihydroxyphenyl)ethenyl] benzoic acid, respectively, as determined by mass spectrometry and nuclear magnetic resonance analyses. Kinetic analyses of the carboxylation reactions indicated that resveratrol and gnetol are better substrates than resorcinol or catechol.

Experimental results

  • Enzyme

Uniprot ID: Q60FX6

Protein: Reversible 2,6-dihydroxybenzoic acid decarboxylase

Organism: Rhizobium radiobacter (Agrobacterium tumefaciens) (Agrobacterium radiobacter)

Length: 327 AA

Taxonomic identifier: 358 [NCBI]

  • Pfam
Source Domain Start End E-value (Domain) Coverage
Pfam-A Amidohydro_2 35 324 3.3e-47 0.931

Program: hmmscan

Version: 3.1b2 (February 2015)

Method: hmmscan --domtblout hmmscan.tbl --noali -E 1e-5 pfam query.fa

Date: Mon Jul 20 14:32:16 2020




These proteins are amidohydrolases that are related to PF019791.


Proteins containing this domain are enzymes from a large metal dependent hydrolase superfamily1. The family includes adenine deaminase ( that hydrolyses adenine to form hypoxanthine and ammonia. This reaction is important for adenine utilisation as a purine and also as a nitrogen source2. The family also includes dihydroorotase and N-acetylglucosamine-6-phosphate deacetylases ( The domain is also found in the urease alpha subunit, where it is the catalytic domain3.

Information is taken from Pfam and InterPro web site.

  • Reaction

resveratrol2,6-Dihydroxy-4-[(E)-2-(4-hydroxyphenyl)ethenyl]benzoic acid

[R1]2,6-Dihydroxy-4-[(E)-2-(4-hydroxyphenyl)ethenyl]benzoic acid.png


  1. Holm L, Sander C. An evolutionary treasure: unification of a broad set of amidohydrolases related to urease[J]. Proteins: Structure, Function, and Bioinformatics, 1997, 28(1): 72-82. 

  2. Nygaard P, Duckert P, Saxild H H. Role of adenine deaminase in purine salvage and nitrogen metabolism and characterization of the ade gene in Bacillus subtilis[J]. Journal of Bacteriology, 1996, 178(3): 846-853. 

  3. Jabri E, Carr M B, Hausinger R P, et al. The crystal structure of urease from Klebsiella aerogenes[J]. Science, 1995, 268(5213): 998-1004. 

Copyright © 2023 University of Nebraska-Lincoln | Dr. Yin's Lab at UNL
Handcoded by Pengxiang Zhang & Yinchao He.