The eLignin Microbial Database

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

brinkdp/eLignin 0 0

Funneling pathway: m-cresol

Full Name
m-cresol
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)
Pseudomonas alcaligenes NCIMB 9867 Gao et al (2005)
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) 3-hydroxybenzoic acid Pometto III et al (1981)
Azoarcus anaerobius LuFRes1 3-hydroxybenzoic acid Gorny et al (1992)
Candida parapsilosis CBS604 3-hydroxybenzoic acid Middelhoven et al (1992), Gérecová et al (2015)
Comamonas testosteroni BR6020 3-hydroxybenzoic acid Providenti et al (2001)
Comamonas testosteroni CNB-1 3-hydroxybenzoic acid Ni et al (2012)
Corynebacterium glutamicum ATCC13032 3-hydroxybenzoic acid Shen et al (2005)
Exophiala jeanselmei CBS 658.76 3-hydroxybenzoic acid Middelhoven (1993)
Klebsiella pneumoniae M5a1 3-hydroxybenzoic acid Jones et al (1990)
Leucosporidium scottii G43 3-hydroxybenzoic acid Middelhoven (1993)
Novosphingobium taihuense T3-B9 3-hydroxybenzoic acid Liu et al (2005)
Oceanimonas doudoroffii JCM21046T 3-hydroxybenzoic acid Numata et al (2015)
Rhodopseudomonas palustris CGA001 3-hydroxybenzoic acid Harwood et al (1988)
Rhodotorula graminis WP1 3-hydroxybenzoic acid Durham et al (1984)
Rhodotorula mucilaginosa CBS17 3-hydroxybenzoic acid Sampaio (1999)
Thauera aromatica K172 3-hydroxybenzoic acid Mechichi et al (2002)
Thauera sp. Cin3,4 3-hydroxybenzoic acid Mechichi et al (2005)
Trichosporon cutaneum CBS2466 3-hydroxybenzoic acid Middelhoven (1993)

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
Pseudomonas alcaligenes NCIMB 9867 3-hydroxybenzoate 6-hydroxylase Gao et al (2005)

Reactions in this Pathway

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Order Substrates Products Enzyme(s) Reaction
1 3-methylphenol → 3-hydroxybenzyl alcohol - R00063
2 3-hydroxybenzyl alcohol → 3-hydroxybenzaldehyde - R00064
3 3-hydroxybenzaldehyde → 3-hydroxybenzoic acid - R00065
4a 3-hydroxybenzoic acid → gentisate 3-hydroxybenzoate 6-hydroxylase R00042
4b 3-hydroxybenzoic acid → protocatechuic acid - R00066

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
3-methylphenol (intermediate) C7H8O CC1=CC(=CC=C1)O 342 substrate
3-hydroxybenzyl alcohol (intermediate) C7H8O2 C1=CC(=CC(=C1)O)CO 102 product, substrate
3-hydroxybenzaldehyde (intermediate) C7H6O2 C1=CC(=CC(=C1)O)C=O 101 product, substrate
3-hydroxybenzoic acid C7H6O3 C1=CC(=CC(=C1)O)C(=O)O 7420 product, substrate
gentisate C7H6O4 C1=CC(=C(C=C1O)C(=O)O)O 3469 product
protocatechuic acid C7H6O4 C1=CC(=C(C=C1C(=O)O)O)O 72 product

Connected Pathways

Outgoing Connections (This pathway connects to:)

Connected Pathway Connecting Compound
Fission pathway: beta-ketoadipate (all branches) protocatechuic acid
Fission pathway: protocatechuate 4,5-cleavage protocatechuic acid
Fission pathway: protocatechuate 2,3-cleavage protocatechuic acid
Fission pathway: beta-ketoadipate: Protocatechuate branch protocatechuic acid

Incoming Connections (Pathways connecting to this one:)

Source Pathway Connecting Compound
Fission pathway: gentisate-cleavage gentisic acid

Genes

Gene Enzyme
Cg_nahG 3-hydroxybenzoate 6-hydroxylase
Pa_xylD 3-hydroxybenzoate 6-hydroxylase

Other Databases

Database Comment
MetaCyc Metabolic pathway database

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