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
ItaiItaiw_v1_scaffold_790379150.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_790379150.1
ItaiItaiw_v1_scaffold_80381530.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_80381530.1
ItaiItaiw_v1_scaffold_80381970.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_80381970.1
ItaiItaiw_v1_scaffold_810387460.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_810387460.1
ItaiItaiw_v1_scaffold_810387570.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_810387570.1
ItaiItaiw_v1_scaffold_840390270.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_840390270.1
ItaiItaiw_v1_scaffold_850391470.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_850391470.1
ItaiItaiw_v1_scaffold_850391780.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_850391780.1
ItaiItaiw_v1_scaffold_860392630.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_860392630.1
ItaiItaiw_v1_scaffold_860393160.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_860393160.1
ItaiItaiw_v1_scaffold_900401760.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_900401760.1
ItaiItaiw_v1_scaffold_900401770.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_900401770.1
ItaiItaiw_v1_scaffold_900401950.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_900401950.1
ItaiItaiw_v1_scaffold_900402270.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_900402270.1
ItaiItaiw_v1_scaffold_900402280.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_900402280.1
ItaiItaiw_v1_scaffold_90399990.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_90399990.1
ItaiItaiw_v1_scaffold_910403170.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_910403170.1
ItaiItaiw_v1_scaffold_920404050.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_920404050.1
ItaiItaiw_v1_scaffold_930405850.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_930405850.1
ItaiItaiw_v1_scaffold_930405930.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_930405930.1
ItaiItaiw_v1_scaffold_940407330.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_940407330.1
ItaiItaiw_v1_scaffold_940407340.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_940407340.1
ItaiItaiw_v1_scaffold_950408100.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_950408100.1
ItaiItaiw_v1_scaffold_970409750.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_970409750.1
ItaiItaiw_v1_scaffold_970409780.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_970409780.1
ItaiItaiw_v1_scaffold_970409830.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_970409830.1
ItaiItaiw_v1_scaffold_990411760.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_990411760.1
ItaiItaiw_v1_scaffold_990411770.1 isoetes_taiwanensis ItaiItaiw_v1_scaffold_990411770.1
ScucSacu_v1.1_s00010001420 salvinia_cucullata ScucSacu_v1.1_s00010001420
ScucSacu_v1.1_s00010004010 salvinia_cucullata ScucSacu_v1.1_s00010004010