The eLignin Microbial Database

A curated resource for microbial metabolism of lignin-derived aromatic compounds

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Achromobacter denitrificans SP1

Kingdom
Bacteria
Phylum
Proteobacteria
Class
Beta-proteobacteria
Type
Gram negative
Strain
SP1
Origin (Details)
Soil
Origin (Category)
Soil
Genome Sequenced
Yes; Strain USDA-ARS-USMARC-56712 (GenBank)
Synonyms
Alcaligenes denitrificans
Alcaligenes xylosoxidans subsp. denitrificans
Empirical Data

Utilizible (lignin-derived) carbon sources (3) Empirical

NB! Always check the primary references for the experimental details; "utilizable" does not necessarily equal "growth-supporting".

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Substrate Reference(s) Comment(s)
di(2-ethylhexyl)phthalate (dehp) Benjamin et al (2016) -
phthalic acid Benjamin et al (2016) -
protocatechuic acid Benjamin et al (2016) -

Pathways (1) Empirical

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Pathway Name Reference(s)
beta-ketoadipate (all branches) Benjamin et al (2016)

Enzymes (0) Empirical

No enzymes listed for this organism.

Transporters (0) Empirical

No transporters listed for this organism.

Genes (0) Empirical

No genes listed for this organism.

Predicted Relationships Hide predicted
The sections below contain relationships inferred from the empirical data above. They are computationally predicted and have not been independently verified. Learn more about data assumptions →
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Predicted pathways in Achromobacter denitrificans SP1 Predicted

Inferred from reported utilizable carbon sources: if the organism can utilise a compound that enters a pathway as a reactant, it may carry that pathway. Not experimentally verified. What does this mean?

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Predicted pathway Funneling branch Inferred via substrate Reference
beta-ketoadipate: Protocatechuate branch beta-ketoadipate branch protocatechuic acid Benjamin et al (2016)
protocatechuate 2,3-cleavage protocatechuate 2,3-cleavage branch protocatechuic acid Benjamin et al (2016)
protocatechuate 4,5-cleavage beta-ketoadipate branch protocatechuic acid Benjamin et al (2016)

Predicted enzymes in Achromobacter denitrificans SP1 Predicted

Inferred from confirmed pathways: if the organism is confirmed to carry a pathway, enzymes known to catalyse reactions in that pathway are predicted to be present. The pathway used for each inference is shown. Not experimentally verified. What does this mean?

Predicted enzyme Inferred via pathway Reference
3-carboxy-cis,cis-muconate cycloisomerase beta-ketoadipate (all branches) Benjamin et al (2016)
3-oxoadipate enol-lactonase beta-ketoadipate (all branches) Benjamin et al (2016)
4-carboxymuconolactone decarboxylase beta-ketoadipate (all branches) Benjamin et al (2016)
Protocatechuate 3,4-dioxygenase beta-ketoadipate (all branches) Benjamin et al (2016)
catechol 1,2-dioxygenase beta-ketoadipate (all branches) Benjamin et al (2016)
muconate cycloisomerase beta-ketoadipate (all branches) Benjamin et al (2016)
muconolactone isomerase beta-ketoadipate (all branches) Benjamin et al (2016)

Culture Collections

No culture collection information available for this organism.

Genome Sequencing

Strain Status Reference
SP1 Yes; Strain USDA-ARS-USMARC-56712 (GenBank) -

Other Databases

Database Comment
KEGG Pathway database
GenBank Genome sequence database
NCBI Taxonomy Taxonomy database

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