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Literature summary for 3.1.1.57 extracted from

  • Kamimura, N.; Aoyama, T.; Yoshida, R.; Takahashi, K.; Kasai, D.; Abe, T.; Mase, K.; Katayama, Y.; Fukuda, M.; Masai, E.
    Characterization of the protocatechuate 4,5-cleavage pathway operon in Comamonas sp. strain E6 and discovery of a novel pathway gene (2010), Appl. Environ. Microbiol., 76, 8093-8101.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

Cloned (Comment) Organism
gene pmdD, DNA and amino acid sequence determination and analysis, the pmdUKEFDABC genes constitute an operon, the transcription start site of the pmd operon is mapped at 167 nucleotides upstream of the initiation codon of pmdU. Quantitative real-time RT-PCR expression analysis Comamonas sp.

Protein Variants

Protein Variants Comment Organism
additional information disruption of gene pmdD in E6, which encodes PDC hydrolase, resultes in a growth defect on protocatechuate, indicating that these gene is essential for the growth of E6 on protocatechuate Comamonas sp.

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2-pyrone-4,6-dicarboxylate + H2O Comamonas sp.
-
?
-
?
2-pyrone-4,6-dicarboxylate + H2O Comamonas sp. E6
-
?
-
?

Organism

Organism UniProt Comment Textmining
Comamonas sp. D1MW98 gene pmdD
-
Comamonas sp. E6 D1MW98 gene pmdD
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2-pyrone-4,6-dicarboxylate + H2O
-
Comamonas sp. ?
-
?
2-pyrone-4,6-dicarboxylate + H2O
-
Comamonas sp. E6 ?
-
?

Synonyms

Synonyms Comment Organism
2-pyrone-4,6-dicarboxylate hydrolase
-
Comamonas sp.
PDC hydrolase
-
Comamonas sp.

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
30
-
assay at Comamonas sp.

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
8.5
-
assay at Comamonas sp.

Expression

Organism Comment Expression
Comamonas sp. pmd promoter activity is enhanced 20fold when the cells grow in presence of protocatechuate. Inducers of the pmd operon are protocatechuic acid and 2-pyrone-4,6-dicarboxylate, but 2-pyrone-4,6-dicarboxylate is the more effective inducer up

General Information

General Information Comment Organism
metabolism proposed catabolic pathway for PCA by Comamonas sp. strain E6 and gene organization of the PCA45 pathway genes, involvement of orf1 harbouring gene pmdD in the PCA45 pathway, overview Comamonas sp.
additional information disruption of gene pmdD in E6, which encodes PDC hydrolase, results in a growth defect on protocatechuate, indicating that these gene is essential for the growth of E6 on protocatechuate Comamonas sp.