PlantSME Plant secondary metabolism enzyme database
Phenylpropanoid portable pathway

Phenylpropanoid portable pathway

Category：Phenylpropanoid 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
01
Substrate
L-Phenylalanine
C9H11NO2
C6H5-CH2-CH(NH2)-COOH
Deamination to form the phenylpropene acid scaffold
PAL34
Product
trans-Cinnamic acid
C9H8O2
C6H5-CH=CH-COOH
PAL commits the amino-acid substrate to phenylpropanoid metabolism.
02
Substrate
trans-Cinnamic acid
C9H8O2
C6H5-CH=CH-COOH
Para-hydroxylation of the aromatic ring
C4H12
Product
p-Coumaric acid
C9H8O3
4-HO-C6H4-CH=CH-COOH
C4H/CYP73A introduces the 4-hydroxyl group for downstream CoA activation.
03
Substrate
p-Coumaric acid
C9H8O3
4-HO-C6H4-CH=CH-COOH
Substrate
CoA
C21H36N7O16P3S
CoA-SH
CoA ligation and activation
4CL121
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.
04
Substrate
p-Coumaroyl-CoA
C30H38N7O18P3S
4-HO-C6H4-CH=CH-C(=O)-SCoA
Hydroxylation, acyl transfer, and methylation
HCT68 C3'H/CYP98A42 CSE135 CCoAOMT19
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.
05
Substrate
Hydroxycinnamoyl-CoA
C30-31 CoA thioesters
Ar-CH=CH-C(=O)-SCoA
Reduction and S/G monolignol formation
CCR46 CAD61 F5H/CYP84A1 COMT41
Product
Coniferyl/sinapyl alcohol
C10H12O3 / C11H14O4
Ar-CH=CH-CH2OH
CCR/CAD and related steps route CoA thioesters toward monolignol monomers.
06
Substrate
Monolignols
C9-C11 phenylpropanoids
Ar-CH=CH-CH2OH
Oxidative coupling and polymerization
LAC157 POD530
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 Lycophytes/Ferns (1267)
Current lineage filter: Lycophytes/Ferns. All species, family, module, and gene statistics below have been narrowed to this lineage.
Algae
Hits0
Bryophytes
Hits0
Lycophytes/Ferns
Hits1267
Gymnosperms
Hits0
Basal angiosperms
Hits0
Monocots
Hits0
Eudicots
Hits0
Species Distribution
Isoetes taiwanensis
Azolla filiculoides
Selaginella moellendorffii
Salvinia cucullata
Lineage Summary
Lycophytes/Ferns
1267
Module Gene List
Reset
GeneSpeciesProtein ID
Smoescaffold_120043700.1 selaginella_moellendorffii Smoescaffold_120043700.1
Smoescaffold_120043750.1 selaginella_moellendorffii Smoescaffold_120043750.1
Smoescaffold_120045050.1 selaginella_moellendorffii Smoescaffold_120045050.1
Smoescaffold_1210046180.1 selaginella_moellendorffii Smoescaffold_1210046180.1
Smoescaffold_1220046540.1 selaginella_moellendorffii Smoescaffold_1220046540.1
Smoescaffold_1240046800.1 selaginella_moellendorffii Smoescaffold_1240046800.1
Smoescaffold_1240047240.1 selaginella_moellendorffii Smoescaffold_1240047240.1
Smoescaffold_1300053520.1 selaginella_moellendorffii Smoescaffold_1300053520.1
Smoescaffold_130050190.1 selaginella_moellendorffii Smoescaffold_130050190.1
Smoescaffold_130050910.1 selaginella_moellendorffii Smoescaffold_130050910.1
Smoescaffold_130052200.1 selaginella_moellendorffii Smoescaffold_130052200.1
Smoescaffold_130053150.1 selaginella_moellendorffii Smoescaffold_130053150.1
Smoescaffold_130053470.1 selaginella_moellendorffii Smoescaffold_130053470.1
Smoescaffold_1310053860.1 selaginella_moellendorffii Smoescaffold_1310053860.1
Smoescaffold_1310053870.1 selaginella_moellendorffii Smoescaffold_1310053870.1
Smoescaffold_1380055030.1 selaginella_moellendorffii Smoescaffold_1380055030.1
Smoescaffold_1400059350.1 selaginella_moellendorffii Smoescaffold_1400059350.1
Smoescaffold_140055710.1 selaginella_moellendorffii Smoescaffold_140055710.1
Smoescaffold_140056460.1 selaginella_moellendorffii Smoescaffold_140056460.1
Smoescaffold_140057130.1 selaginella_moellendorffii Smoescaffold_140057130.1
Smoescaffold_1410059540.1 selaginella_moellendorffii Smoescaffold_1410059540.1
Smoescaffold_1470060450.1 selaginella_moellendorffii Smoescaffold_1470060450.1
Smoescaffold_1490060700.1 selaginella_moellendorffii Smoescaffold_1490060700.1
Smoescaffold_150060970.1 selaginella_moellendorffii Smoescaffold_150060970.1
Smoescaffold_150061010.1 selaginella_moellendorffii Smoescaffold_150061010.1
Smoescaffold_150062110.1 selaginella_moellendorffii Smoescaffold_150062110.1
Smoescaffold_1510062530.1 selaginella_moellendorffii Smoescaffold_1510062530.1
Smoescaffold_1510062580.1 selaginella_moellendorffii Smoescaffold_1510062580.1
Smoescaffold_1520062980.1 selaginella_moellendorffii Smoescaffold_1520062980.1
Smoescaffold_1550063180.1 selaginella_moellendorffii Smoescaffold_1550063180.1