Phenylpropanoid portable pathway

Phenylpropanoid pathway definition imported from the 2026-05-17 portable BLAST/HMM package.

Representative Phenylpropanoid Reaction Route

Entry backbone to monolignol/lignin branches. Substrates, products, and condensed structural formulae show representative conversions; resolved reactions are shown as single enzymes, whereas multi-enzyme branches are shown as curated modules. Member counts come from public annotations.

6 curated steps/modules

Entry Backbone And Lignin Direction

Substrate

L-Phenylalanine

C₉H₁₁NO₂

C₆H₅-CH₂-CH(NH₂)-COOH

Deamination to form the phenylpropene acid scaffold

PAL1910

Product

trans-Cinnamic acid

C₉H₈O₂

C₆H₅-CH=CH-COOH

PAL commits the amino-acid substrate to phenylpropanoid metabolism.

Substrate

trans-Cinnamic acid

C₉H₈O₂

C₆H₅-CH=CH-COOH

Para-hydroxylation of the aromatic ring

C4H401

Product

p-Coumaric acid

C₉H₈O₃

4-HO-C₆H₄-CH=CH-COOH

C4H/CYP73A introduces the 4-hydroxyl group for downstream CoA activation.

Substrate

p-Coumaric acid

C₉H₈O₃

4-HO-C₆H₄-CH=CH-COOH

Substrate

CoA

C₂₁H₃₆N₇O₁₆P₃S

CoA-SH

CoA ligation and activation

4CL3434

Product

p-Coumaroyl-CoA

C₃₀H₃₈N₇O₁₈P₃S

4-HO-C₆H₄-CH=CH-C(=O)-SCoA

4CL converts the free acid into a thioester used by condensation, acyltransfer, and reduction reactions.

Substrate

p-Coumaroyl-CoA

C₃₀H₃₈N₇O₁₈P₃S

4-HO-C₆H₄-CH=CH-C(=O)-SCoA

Hydroxylation, acyl transfer, and methylation

HCT1920 C3'H/CYP98A1929 CSE2414 CCoAOMT382

Product

Feruloyl-CoA-type intermediates

C₃₁H₄₀N₇O₁₉P₃S

3-MeO-4-HO-C₆H₃-CH=CH-C(=O)-SCoA

This segment remodels the p-coumaroyl scaffold into caffeoyl/feruloyl-type intermediates.

Substrate

Hydroxycinnamoyl-CoA

C_30-31 CoA thioesters

Ar-CH=CH-C(=O)-SCoA

Reduction and S/G monolignol formation

CCR2707 CAD2978 F5H/CYP84A171 COMT1825

Product

Coniferyl/sinapyl alcohol

C₁₀H₁₂O₃ / C₁₁H₁₄O₄

Ar-CH=CH-CH₂OH

CCR/CAD and related steps route CoA thioesters toward monolignol monomers.

Substrate

Monolignols

C₉-C₁₁ phenylpropanoids

Ar-CH=CH-CH₂OH

Oxidative coupling and polymerization

LAC3730 POD14559

Product

Lignin polymer

(C₉ unit)n

[Ar-C₃]n ether/C-C polymer

LAC/POD oxidatively couple monolignols into lignin polymers.

Lineage Distribution

Assignments under this module are distributed across the following plant lineages.

All Lineages Bryophytes (38360)

Current lineage filter: Bryophytes. All species, family, module, and gene statistics below have been narrowed to this lineage.

Species Distribution

Anthoceros agrestis Oxford

Anthoceros punctatus

Buxbaumia aphylla

Calliergon cordifolium

Archidium alternifolium

Funaria hygrometrica

Andreaea rupestris

Acrobolbus urvilleanus

Bryoxiphium norvegicum

Lineage Summary

Bryophytes

38360

Module Gene List

Gene	Species	Protein ID
AagrOXFutg000042l0113960.6	anthoceros_agrestis_oxford	AagrOXFutg000042l0113960.6
AagrOXFutg000042l0113960.7	anthoceros_agrestis_oxford	AagrOXFutg000042l0113960.7
AagrOXFutg000042l0113960.8	anthoceros_agrestis_oxford	AagrOXFutg000042l0113960.8
AagrOXFutg000042l0113960.9	anthoceros_agrestis_oxford	AagrOXFutg000042l0113960.9
AagrOXFutg000042l0113970.1	anthoceros_agrestis_oxford	AagrOXFutg000042l0113970.1
AagrOXFutg000044l0116180.1	anthoceros_agrestis_oxford	AagrOXFutg000044l0116180.1
AagrOXFutg000045l0116660.1	anthoceros_agrestis_oxford	AagrOXFutg000045l0116660.1
AagrOXFutg000045l0116660.2	anthoceros_agrestis_oxford	AagrOXFutg000045l0116660.2
AagrOXFutg000045l0116660.3	anthoceros_agrestis_oxford	AagrOXFutg000045l0116660.3
AagrOXFutg000045l0116660.4	anthoceros_agrestis_oxford	AagrOXFutg000045l0116660.4
AagrOXFutg000045l0116890.1	anthoceros_agrestis_oxford	AagrOXFutg000045l0116890.1
AagrOXFutg000045l0118160.1	anthoceros_agrestis_oxford	AagrOXFutg000045l0118160.1
AagrOXFutg000045l0118570.1	anthoceros_agrestis_oxford	AagrOXFutg000045l0118570.1
AagrOXFutg000045l0118840.1	anthoceros_agrestis_oxford	AagrOXFutg000045l0118840.1
AagrOXFutg000045l0119080.1	anthoceros_agrestis_oxford	AagrOXFutg000045l0119080.1
AagrOXFutg000045l0119080.2	anthoceros_agrestis_oxford	AagrOXFutg000045l0119080.2
AagrOXFutg000045l0119510.1	anthoceros_agrestis_oxford	AagrOXFutg000045l0119510.1
AagrOXFutg000049l0125460.1	anthoceros_agrestis_oxford	AagrOXFutg000049l0125460.1
AagrOXFutg000049l0125460.2	anthoceros_agrestis_oxford	AagrOXFutg000049l0125460.2
AagrOXFutg000049l0125460.3	anthoceros_agrestis_oxford	AagrOXFutg000049l0125460.3
AagrOXFutg000049l0125460.4	anthoceros_agrestis_oxford	AagrOXFutg000049l0125460.4
AagrOXFutg000049l0125460.5	anthoceros_agrestis_oxford	AagrOXFutg000049l0125460.5
AagrOXFutg000049l0125460.6	anthoceros_agrestis_oxford	AagrOXFutg000049l0125460.6
AagrOXFutg000049l0125460.7	anthoceros_agrestis_oxford	AagrOXFutg000049l0125460.7
AagrOXFutg000049l0127560.1	anthoceros_agrestis_oxford	AagrOXFutg000049l0127560.1
AagrOXFutg000049l0127560.2	anthoceros_agrestis_oxford	AagrOXFutg000049l0127560.2
AagrOXFutg000049l0129340.1	anthoceros_agrestis_oxford	AagrOXFutg000049l0129340.1
AagrOXFutg000050l0130220.1	anthoceros_agrestis_oxford	AagrOXFutg000050l0130220.1
AagrOXFutg000050l0130220.3	anthoceros_agrestis_oxford	AagrOXFutg000050l0130220.3
AagrOXFutg000050l0130220.4	anthoceros_agrestis_oxford	AagrOXFutg000050l0130220.4