ArticleJournal of bacteriology2005
Characterization of the gallate dioxygenase gene: three distinct ring cleavage dioxygenases are involved in syringate degradation by Sphingomonas paucimobilis SYK-6.
Article in Journal of bacteriology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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35 citing papers in PubMed, 84 citations in OpenAlex.
- Platform Potential ofJournal of agricultural and food chemistry · 2026Article
- Catabolic System of Syringic Acid, a Key Intermediate of Lignin-Derived Aromatic Compounds, via a Novel Linear Pathway inJournal of agricultural and food chemistry · 2025Article
- Bacterial transformation of lignin: key enzymes and high-value products.Biotechnology for biofuels and bioproducts · 2024Review
- Report of genome sequence of3 Biotech · 2023Article
- How Single Amino Acid Substitutions Can Disrupt a Protein Hetero-Dimer Interface: Computational and Experimental Studies of the LigAB Dioxygenase fromInternational journal of molecular sciences · 2023Article
- Development and Application of Whole-Cell Biosensors for the Detection of Gallic Acid.ACS synthetic biology · 2023Article
- Variations in lignin monomer contents and stable hydrogen isotope ratios in methoxy groups during the biodegradation of garden biomass.Scientific reports · 2022Article
- Isolation and Characterization of Lignocellulose-DegradingApplied and environmental microbiology · 2022Article
- Valorization of lignin components into gallate by integrated biological hydroxylation, O-demethylation, and aryl side-chain oxidation.Science advances · 2021Article
- Redundancy in aromatic O-demethylation and ring opening reactions inApplied and environmental microbiology · 2021Article
- Depolymerization and conversion of lignin to value-added bioproducts by microbial and enzymatic catalysis.Biotechnology for biofuels · 2021Review
- Kinetic modeling of anaerobic degradation of plant-derived aromatic mixtures by Rhodopseudomonas palustris.Biodegradation · 2021Article
- Genomics and metatranscriptomics of biogeochemical cycling and degradation of lignin-derived aromatic compounds in thermal swamp sediment.The ISME journal · 2021Article
- Response of CoastalFrontiers in microbiology · 2021Article
- The SyringateApplied and environmental microbiology · 2020Article
- Ligninolytic enzymes and its mechanisms for degradation of lignocellulosic waste in environment.Heliyon · 2020Review
- Regulation of vanillate and syringate catabolism by a MarR-type transcriptional regulator DesR in Sphingobium sp. SYK-6.Scientific reports · 2019Article
- Elucidating the role of shikimate dehydrogenase in controlling the production of anthocyanins and hydrolysable tannins in the outer peels of pomegranate.BMC plant biology · 2019Article
- Isolation of a novel platform bacterium for lignin valorization and its application in glucose-free cis,cis-muconate production.Journal of industrial microbiology & biotechnology · 2019Article
- Oxidative opening of the aromatic ring: Tracing the natural history of a large superfamily of dioxygenase domains and their relatives.The Journal of biological chemistry · 2019Article
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Sphingomonas paucimobilis SYK-6 converts vanillate and syringate to protocatechuate (PCA) and 3-O-methylgallate (3MGA) in reactions with the tetrahydrofolate-dependent O-demethylases LigM and DesA, respectively. PCA is further degraded via the PCA 4,5-cleavage pathway, whereas 3MGA is metabolized via three distinct pathways in which PCA 4,5-dioxygenase (LigAB), 3MGA 3,4-dioxygenase (DesZ), and 3MGA O-demethylase (LigM) are involved. In the 3MGA O-demethylation pathway, LigM converts 3MGA to gallate, and the resulting gallate appears to be degraded by a dioxygenase other than LigAB or DesZ. Here, we isolated the gallate dioxygenase gene, desB, which encodes a 418-amino-acid protein with a molecular mass of 46,843 Da. The amino acid sequences of the N-terminal region (residues 1 to 285) and the C-terminal region (residues 286 to 418) of DesB exhibited ca. 40% and 27% identity with the sequences of the PCA 4,5-dioxygenase beta and alpha subunits, respectively. DesB produced in Escherichia coli was purified and was estimated to be a homodimer (86 kDa). DesB specifically attacked gallate to generate 4-oxalomesaconate as the reaction product. The K(m) for gallate and the V(max) were determined to be 66.9 +/- 9.3 microM and 42.7 +/- 2.4 U/mg, respectively. On the basis of the analysis of various SYK-6 mutants lacking the genes involved in syringate degradation, we concluded that (i) all of the three-ring cleavage dioxygenases are involved in syringate catabolism, (ii) the pathway involving LigM and DesB plays an especially important role in the growth of SYK-6 on syringate, and (iii) DesB and LigAB are involved in gallate degradation.
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