Ubiquinol-6 biosynthesis from 4-hydroxybenzoate
WikiPathways:WP287
Ubiquinol-6 biosynthesis from 4-hydroxybenzoate prenylates 4-hydroxybenzoate to 3-hexaprenyl-4-hydroxybenzoate, then modifies the aromatic ring through hydroxylation, methylation, decarboxylation, and reduction steps to form ubiquinol-6 in Saccharomyces cerevisiae.
- Pathway type
- cofactor biosynthesis
- Organism scope
Pathway network
37 nodes · 52 asserted directed edges
Arrows show recorded subject → object relationships, not necessarily metabolic flow. Select a node for details or an arrow for evidence. Scroll, zoom or find a node to explore.
- Reaction / activity
- Chemical / cofactor
- Protein / complex
- Solid arrow: mechanistic relation
- Dashed arrow: membership, location or cofactor relation
Components and activities
| Node | Kind or role | Source direction |
|---|---|---|
Saccharomyces cerevisiaeNCBITaxon:4932 | taxon | |
COQ6SGD:S000003487 | protein | |
COQ3SGD:S000005456 | protein | |
3,4-dihydroxy-5-all-trans-hexaprenylbenzoateCHEBI:58373 | small molecule | |
ubiquinol-6CHEBI:52970 | small molecule | |
COQ2SGD:S000005324 | protein | |
3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoateCHEBI:57916 | small molecule | |
diphosphate(3-)CHEBI:33019 | small molecule | |
CAT5SGD:S000005651 | protein | |
hydrogen donorCHEBI:17499 | small molecule | |
COQ5SGD:S000004578 | protein | |
S-adenosyl-L-methionine zwitterionCHEBI:59789 | small molecule | |
4-hydroxybenzoateCHEBI:30763 | small molecule | |
3-hexaprenyl-4-hydroxybenzoateCHEBI:84492 | small molecule | |
all-trans-hexaprenyl diphosphate(3-)CHEBI:58179 | small molecule | |
dioxygenCHEBI:15379 | small molecule | |
hydronCHEBI:15378 | small molecule | |
waterCHEBI:15377 | small molecule | |
NADP(3-)CHEBI:58349 | small molecule | |
S-adenosyl-L-homocysteine zwitterionCHEBI:57856 | small molecule | |
2-hexaprenyl-6-methoxyphenolCHEBI:1109 | small molecule | |
carbon dioxideCHEBI:16526 | small molecule | |
2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinolCHEBI:61472 | small molecule | |
NADPH(4-)CHEBI:57783 | small molecule | |
3-demethylubiquinol-6CHEBI:64253 | small molecule | |
6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinolCHEBI:61473 | small molecule | |
acceptorCHEBI:15339 | small molecule | |
FAD(3-)CHEBI:57692 | cofactor | |
magnesium(2+)CHEBI:18420 | cofactor | |
iron cationCHEBI:24875 | cofactor | |
2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol to 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id1105b8d9 | molecular activity | left to right |
4-hydroxybenzoate to 3-hexaprenyl-4-hydroxybenzoate GPML interactionWikiPathways:WP287/id46b5e257 | molecular activity | left to right |
3-hexaprenyl-4-hydroxybenzoate to 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id4c332e28 | molecular activity | left to right |
3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate to 2-hexaprenyl-6-methoxyphenol GPML interactionWikiPathways:WP287/id55520bdd | molecular activity | left to right |
3,4-dihydroxy-5-all-trans-hexaprenylbenzoate to 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id646fb25b | molecular activity | left to right |
2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 | molecular activity | left to right |
3-demethylubiquinol-6 to ubiquinol-6 GPML interactionWikiPathways:WP287/id86d34e80 | molecular activity | left to right |
6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol to 3-demethylubiquinol-6 GPML interactionWikiPathways:WP287/idac01794e | molecular activity | left to right |
Mechanistic edges
| Subject | Predicate and description | Object | Evidence |
|---|---|---|---|
2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinolCHEBI:61472 | consumes | 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol to 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id1105b8d9 |
|
2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol to 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id1105b8d9 | produces | 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinolCHEBI:61473 |
|
4-hydroxybenzoateCHEBI:30763 | consumes | 4-hydroxybenzoate to 3-hexaprenyl-4-hydroxybenzoate GPML interactionWikiPathways:WP287/id46b5e257 |
|
4-hydroxybenzoate to 3-hexaprenyl-4-hydroxybenzoate GPML interactionWikiPathways:WP287/id46b5e257 | produces | 3-hexaprenyl-4-hydroxybenzoateCHEBI:84492 |
|
3-hexaprenyl-4-hydroxybenzoateCHEBI:84492 | consumes | 3-hexaprenyl-4-hydroxybenzoate to 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id4c332e28 |
|
3-hexaprenyl-4-hydroxybenzoate to 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id4c332e28 | produces | 3,4-dihydroxy-5-all-trans-hexaprenylbenzoateCHEBI:58373 |
|
3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoateCHEBI:57916 | consumes | 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate to 2-hexaprenyl-6-methoxyphenol GPML interactionWikiPathways:WP287/id55520bdd |
|
3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate to 2-hexaprenyl-6-methoxyphenol GPML interactionWikiPathways:WP287/id55520bdd | produces | 2-hexaprenyl-6-methoxyphenolCHEBI:1109 |
|
3,4-dihydroxy-5-all-trans-hexaprenylbenzoateCHEBI:58373 | consumes | 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate to 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id646fb25b |
|
3,4-dihydroxy-5-all-trans-hexaprenylbenzoate to 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id646fb25b | produces | 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoateCHEBI:57916 |
|
2-hexaprenyl-6-methoxyphenolCHEBI:1109 | consumes | 2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 |
|
2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 | produces | 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinolCHEBI:61472 |
|
3-demethylubiquinol-6CHEBI:64253 | consumes | 3-demethylubiquinol-6 to ubiquinol-6 GPML interactionWikiPathways:WP287/id86d34e80 |
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3-demethylubiquinol-6 to ubiquinol-6 GPML interactionWikiPathways:WP287/id86d34e80 | produces | ubiquinol-6CHEBI:52970 |
|
6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinolCHEBI:61473 | consumes | 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol to 3-demethylubiquinol-6 GPML interactionWikiPathways:WP287/idac01794e |
|
6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol to 3-demethylubiquinol-6 GPML interactionWikiPathways:WP287/idac01794e | produces | 3-demethylubiquinol-6CHEBI:64253 |
|
hydronCHEBI:15378 | consumes | 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate to 2-hexaprenyl-6-methoxyphenol GPML interactionWikiPathways:WP287/id55520bdd |
|
2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 | produces | NADP(3-)CHEBI:58349 |
|
2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 | produces | waterCHEBI:15377 |
|
COQ6SGD:S000003487 | catalyzes | 2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 |
|
S-adenosyl-L-methionine zwitterionCHEBI:59789 | consumes | 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate to 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id646fb25b |
|
S-adenosyl-L-methionine zwitterionCHEBI:59789 | consumes | 3-demethylubiquinol-6 to ubiquinol-6 GPML interactionWikiPathways:WP287/id86d34e80 |
|
COQ6SGD:S000003487 | catalyzes | 3-hexaprenyl-4-hydroxybenzoate to 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id4c332e28 |
|
hydrogen donorCHEBI:17499 | consumes | 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol to 3-demethylubiquinol-6 GPML interactionWikiPathways:WP287/idac01794e |
|
dioxygenCHEBI:15379 | consumes | 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol to 3-demethylubiquinol-6 GPML interactionWikiPathways:WP287/idac01794e |
|
all-trans-hexaprenyl diphosphate(3-)CHEBI:58179 | consumes | 4-hydroxybenzoate to 3-hexaprenyl-4-hydroxybenzoate GPML interactionWikiPathways:WP287/id46b5e257 |
|
dioxygenCHEBI:15379 | consumes | 3-hexaprenyl-4-hydroxybenzoate to 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id4c332e28 |
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hydronCHEBI:15378 | consumes | 3-hexaprenyl-4-hydroxybenzoate to 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id4c332e28 |
|
hydronCHEBI:15378 | consumes | 2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 |
|
NADPH(4-)CHEBI:57783 | consumes | 2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 |
|
dioxygenCHEBI:15379 | consumes | 2-hexaprenyl-6-methoxyphenol to 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id74367dd4 |
|
COQ3SGD:S000005456 | catalyzes | 3-demethylubiquinol-6 to ubiquinol-6 GPML interactionWikiPathways:WP287/id86d34e80 |
|
3-hexaprenyl-4-hydroxybenzoate to 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id4c332e28 | produces | waterCHEBI:15377 |
|
COQ2SGD:S000005324 | catalyzes | 4-hydroxybenzoate to 3-hexaprenyl-4-hydroxybenzoate GPML interactionWikiPathways:WP287/id46b5e257 |
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3-demethylubiquinol-6 to ubiquinol-6 GPML interactionWikiPathways:WP287/id86d34e80 | produces | S-adenosyl-L-homocysteine zwitterionCHEBI:57856 |
|
3-demethylubiquinol-6 to ubiquinol-6 GPML interactionWikiPathways:WP287/id86d34e80 | produces | hydronCHEBI:15378 |
|
COQ3SGD:S000005456 | catalyzes | 3,4-dihydroxy-5-all-trans-hexaprenylbenzoate to 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id646fb25b |
|
CAT5SGD:S000005651 | catalyzes | 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol to 3-demethylubiquinol-6 GPML interactionWikiPathways:WP287/idac01794e |
|
2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol to 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id1105b8d9 | produces | S-adenosyl-L-homocysteine zwitterionCHEBI:57856 |
|
2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol to 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id1105b8d9 | produces | hydronCHEBI:15378 |
|
S-adenosyl-L-methionine zwitterionCHEBI:59789 | consumes | 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol to 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id1105b8d9 |
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3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate to 2-hexaprenyl-6-methoxyphenol GPML interactionWikiPathways:WP287/id55520bdd | produces | carbon dioxideCHEBI:16526 |
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4-hydroxybenzoate to 3-hexaprenyl-4-hydroxybenzoate GPML interactionWikiPathways:WP287/id46b5e257 | produces | diphosphate(3-)CHEBI:33019 |
|
COQ5SGD:S000004578 | catalyzes | 2-methoxy-6-all-trans-hexaprenyl-1,4-benzoquinol to 6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol GPML interactionWikiPathways:WP287/id1105b8d9 |
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6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol to 3-demethylubiquinol-6 GPML interactionWikiPathways:WP287/idac01794e | produces | acceptorCHEBI:15339 |
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6-methoxy-3-methyl-2-all-trans-hexaprenyl-1,4-benzoquinol to 3-demethylubiquinol-6 GPML interactionWikiPathways:WP287/idac01794e | produces | waterCHEBI:15377 |
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3,4-dihydroxy-5-all-trans-hexaprenylbenzoate to 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id646fb25b | produces | S-adenosyl-L-homocysteine zwitterionCHEBI:57856 |
|
3,4-dihydroxy-5-all-trans-hexaprenylbenzoate to 3-methoxy-4-hydroxy-5-all-trans-hexaprenylbenzoate GPML interactionWikiPathways:WP287/id646fb25b | produces | hydronCHEBI:15378 |
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COQ6SGD:S000003487 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. Reviewed source qualification: The caution limits deamination in other taxa and does not negate the yeast FAD cofactor annotation. UniProt evidence: ECO:0000255 (HAMAP-Rule:MF_03193); ECO:0000269 (PubMed:26808124) | FAD(3-)CHEBI:57692 |
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COQ3SGD:S000005456 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000255 (HAMAP-Rule:MF_03190) | magnesium(2+)CHEBI:18420 |
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COQ2SGD:S000005324 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. UniProt evidence: ECO:0000255 (HAMAP-Rule:MF_03189); ECO:0000269 (PubMed:1740455) | magnesium(2+)CHEBI:18420 |
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CAT5SGD:S000005651 | has_cofactor UniProtKB reviewed (Swiss-Prot) annotation. Reviewed source qualification: Carbon catabolite repression was an indirect phenotype, not the enzyme function; retain the inferred iron cofactor annotation without adding regulatory causality. UniProt evidence: ECO:0000255 (HAMAP-Rule:MF_03194) Binds 2 iron ions per subunit. UniProt note evidence: ECO:0000255 (HAMAP-Rule:MF_03194) | iron cationCHEBI:24875 |
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References
WikiPathways:WP287WP287 native structured pathway source (source version: WP287_r20260921194738)UniProtKB:P53318UniProtKB P53318 cofactor annotations (source version: 2026_03)UniProtKB:P27680UniProtKB P27680 cofactor annotations (source version: 2026_03)UniProtKB:P32378UniProtKB P32378 cofactor annotations (source version: 2026_03)UniProtKB:P41735UniProtKB P41735 cofactor annotations (source version: 2026_03)
Curation history
- Codex
- EDIT — Review complete causal graph against native sources and correct unsupported or omitted relationships
Restored COQ catalysts, SAM/SAH, oxygen, reducing equivalents and carbon dioxide; retained the source generic electron acceptor classes. Source complex membrane attachment is tentative, so no certain compartment edge is inferred. Every native record was inspected; see reports/causal-graph-diagram-review.json for native-object counts, exclusions and identity corrections. Semantic validation and native GraphId locator checks passed; authority snapshots and full corpus gates are coordinated separately.
- EDIT — Review complete causal graph against native sources and correct unsupported or omitted relationships