The eLignin Microbial Database

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

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Fission pathway: gentisate-cleavage

Full Name
gentisate-cleavage
Funneling Branch
gentisate branch

Pathway Network Visualization 📥 Export BioPAX JSON-LD

Interactive metabolic pathway map showing compounds (text labels) connected by reaction arrows. Click arrows to view reaction details, click compounds to view substrate details. Zoom with mouse wheel, pan by dragging.

Empirical Data

Organisms with this Pathway Empirical

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Organism Strain Reference(s)
Klebsiella pneumoniae M5a1 Jones et al (1990)
Candida parapsilosis CBS604 Holesova et al (2011)
Cupriavidus basilensis B-8 Shi et al (2013)
Streptomyces sp. WA46 Ishiyama et al (2004)
Corynebacterium glutamicum ATCC13032 Shen et al (2005)
Pseudomonas alcaligenes NCIMB 9867 Gao et al (2005)
Haloarcula sp. D1 Fairley et al (2002)
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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Organisms predicted for this pathway Predicted

Inferred from reported substrate utilization: organisms that can utilise a compound entering this pathway as a reactant are predicted to carry the pathway, unless already confirmed. The reference confirming substrate use is shown. Not experimentally verified. What does this mean?

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Predicted organism Strain Inferred via substrate Reference
Amycolatopsis sp. 75iv2 (ATCC 39116) gentisic acid Davis et al (2012), Pometto III et al (1981)
Burkholderia cepacia Song isolate 1 gentisic acid Song (2009)
Comamonas testosteroni CNB-1 gentisic acid Ni et al (2012)
Exophiala jeanselmei CBS 658.76 gentisic acid Middelhoven (1993)
Flavimonas oryzihabitans Song isolate 4 gentisic acid Song (2009)
Oceanimonas doudoroffii JCM21046T gentisic acid Numata et al (2015)
Streptomyces viridosporus T7A gentisic acid Zeng et al (2012)

Predicted enzyme assignments for confirmed organisms Predicted

Inferred from confirmed pathway membership: if an organism is confirmed to carry this pathway, enzymes known to catalyse reactions within it are predicted to be present. The reference confirming the organism’s membership of this pathway is shown. Not experimentally verified. What does this mean?

Organism Strain Predicted enzyme Reference confirming pathway
Klebsiella pneumoniae M5a1 fumarylpyruvate hydrolase Jones et al (1990)
Candida parapsilosis CBS604 fumarylpyruvate hydrolase Holesova et al (2011)
Cupriavidus basilensis B-8 fumarylpyruvate hydrolase Shi et al (2013)
Streptomyces sp. WA46 fumarylpyruvate hydrolase Ishiyama et al (2004)
Pseudomonas alcaligenes NCIMB 9867 fumarylpyruvate hydrolase Gao et al (2005)
Haloarcula sp. D1 fumarylpyruvate hydrolase Fairley et al (2002)
Klebsiella pneumoniae M5a1 gentisate 1,2-dioxygenase Jones et al (1990)
Candida parapsilosis CBS604 gentisate 1,2-dioxygenase Holesova et al (2011)
Cupriavidus basilensis B-8 gentisate 1,2-dioxygenase Shi et al (2013)
Corynebacterium glutamicum ATCC13032 gentisate 1,2-dioxygenase Shen et al (2005)
Pseudomonas alcaligenes NCIMB 9867 gentisate 1,2-dioxygenase Gao et al (2005)
Haloarcula sp. D1 gentisate 1,2-dioxygenase Fairley et al (2002)
Klebsiella pneumoniae M5a1 maleylpyruvate isomerase (mycothiol-dependent) Jones et al (1990)
Candida parapsilosis CBS604 maleylpyruvate isomerase (mycothiol-dependent) Holesova et al (2011)
Cupriavidus basilensis B-8 maleylpyruvate isomerase (mycothiol-dependent) Shi et al (2013)
Streptomyces sp. WA46 maleylpyruvate isomerase (mycothiol-dependent) Ishiyama et al (2004)
Pseudomonas alcaligenes NCIMB 9867 maleylpyruvate isomerase (mycothiol-dependent) Gao et al (2005)
Haloarcula sp. D1 maleylpyruvate isomerase (mycothiol-dependent) Fairley et al (2002)

Reactions in this Pathway

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Order Substrates Products Enzyme(s) Reaction
1 gentisic acid → 3-maleylpyruvate gentisate 1,2-dioxygenase R00039
2 3-maleylpyruvate → 3-fumarylpyruvate maleylpyruvate isomerase (mycothiol-dependent) R00040
3 3-fumarylpyruvate → fumarate + pyruvate fumarylpyruvate hydrolase R00041

Compounds (Substrates & Products)

Intermediate metabolites that are not registered in the Substrate table are shown as plain text without a hyperlink.

Compound Name Formula SMILES PubChem Role
gentisic acid C7H6O4 C1=CC(=C(C=C1O)C(=O)O)O 3469 substrate
3-maleylpyruvate (intermediate) C7H4O62- C(C(=O)C=CC(=O)[O-])C(=O)C(=O)[O-] 6857405 product, substrate
3-fumarylpyruvate (intermediate) C7H6O6 C(C(=O)C=CC(=O)O)C(=O)C(=O)O 5280525 product
3-fumarylpyruvate (intermediate) C7H6O6 C(C(=O)C=CC(=O)O)C(=O)C(=O)O 5280525 substrate
fumarate (intermediate) C4H2O42- C(=CC(=O)[O-])C(=O)[O-] 5460307 product
pyruvate (intermediate) C3H3O3- CC(=O)C(=O)[O-] 107735 product

Connected Pathways

Outgoing Connections (This pathway connects to:)

Connected Pathway Connecting Compound
Funneling pathway: m-cresol gentisic acid

Incoming Connections (Pathways connecting to this one:)

Source Pathway Connecting Compound
Funneling pathway: salicylic acid II gentisic acid

Genes

Gene Enzyme
Str_sdgD gentisate 1,2-dioxygenase
Cg_nagI gentisate 1,2-dioxygenase
Cg_nagL maleylpyruvate isomerase (mycothiol-dependent)
Cg_nagK fumarylpyruvate hydrolase

Other Databases

Database Comment
MetaCyc Metabolic pathway database

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