PlantSME Plant secondary metabolism enzyme database
Flavonoid portable pathway

Flavonoid portable pathway

Category：Flavonoid pathway

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

Representative Flavonoid Reaction Route
Phenylpropanoid entry, flavonoid scaffold, and anthocyanin branches. The flavonoid pathway is branched; this view arranges the main scaffold and common branches into a readable representative route without forcing all branches into one linear pathway.
9 curated steps/modules
From Phenylpropanoid Entry To Flavonoid Scaffold
01
Substrate
L-Phenylalanine
C9H11NO2
C6H5-CH2-CH(NH2)-COOH
Deamination to the cinnamate entry point
PAL7015
Product
trans-Cinnamic acid
C9H8O2
C6H5-CH=CH-COOH
PAL commits L-phenylalanine to the phenylpropanoid entry route that supplies the flavonoid acyl donor.
02
Substrate
trans-Cinnamic acid
C9H8O2
C6H5-CH=CH-COOH
Para-hydroxylation of cinnamate
C4H464
Product
p-Coumaric acid
C9H8O3
4-HO-C6H4-CH=CH-COOH
C4H/CYP73A hydroxylates cinnamate to p-coumarate, a required phenylpropanoid step toward the flavonoid donor.
03
Substrate
p-Coumaric acid
C9H8O3
4-HO-C6H4-CH=CH-COOH
Substrate
CoA
C21H36N7O16P3S
CoA-SH
CoA ligation to form the flavonoid acyl donor
4CL25907
Product
p-Coumaroyl-CoA
C30H38N7O18P3S
4-HO-C6H4-CH=CH-C(=O)-SCoA
4CL activates p-coumarate to p-coumaroyl-CoA for CHS-mediated flavonoid scaffold formation.
04
Substrate
p-Coumaroyl-CoA
C30H38N7O18P3S
4-HO-C6H4-CH=CH-C(=O)-SCoA
Substrate
Malonyl-CoA
C24H38N7O19P3S
HOOC-CH2-C(=O)-SCoA
Condensation of the C6-C3-C6 scaffold
CHS11738
Product
Naringenin chalcone
C15H12O5
HO-Ar-CO-CH=CH-Ar-(OH)2
CHS condenses one p-coumaroyl-CoA with three malonyl-CoA units to form a chalcone scaffold.
05
Substrate
Naringenin chalcone
C15H12O5
HO-Ar-CO-CH=CH-Ar-(OH)2
Chalcone cyclization
CHI3089
Product
Naringenin
C15H12O5
flavanone C6-C3-C6 ring
CHI converts the open-chain chalcone into the flavanone core.
06
Substrate
Naringenin
C15H12O5
flavanone C6-C3-C6 ring
C-ring 3-hydroxylation to dihydroflavonols
F3H4697
Product
Dihydrokaempferol
C15H12O6
dihydroflavonol C-ring
F3H is a 2-oxoglutarate-dependent dioxygenase that converts flavanones into the dihydroflavonol pool.
07
Substrate
Flavanones/dihydroflavonols
C15H12O5-6
C6-C3-C6 oxygen heterocycle
B-ring hydroxylation shapes flavonoid hydroxylation patterns
F3'H/CYP75B1332 F3'5'H/CYP75A247
Product
B-ring hydroxylated flavonoid intermediates
C15H12O6-7
3'/3'5'-hydroxylated flavonoids
CYP75B/F3'H and CYP75A/F3'5'H alter B-ring hydroxylation and generate precursors for quercetin- and myricetin-type branches.
Flavone, Anthocyanin, And Proanthocyanidin Branches
08
Substrate
Flavanones/dihydroflavonols
C15 flavonoids
C6-C3-C6 oxygen heterocycle
Flavone, isoflavonoid, and flavonol branches
FNS359 IFS541 IFR11814 FLS124
Product
Flavones/isoflavones/flavonols
C15H10O5-7
oxidized C6-C3-C6 flavonoids
Branch enzymes route shared intermediates into distinct flavonoid subclasses.
09
Substrate
Dihydroflavonols
C15H12O6-7
dihydroflavonol C-ring
Anthocyanin and proanthocyanidin direction
DFR1310 ANS/LDOX1019 UFGT106747 ANR1183
Product
Anthocyanin glycosides/proanthocyanidins
C15 glycosides/polymers
flavylium-glycoside / flavan-3-ol polymer
DFR/ANS/UFGT/ANR route the dihydroflavonol pool toward pigments and condensed tannins.
Lineage Distribution
Assignments under this module are distributed across the following plant lineages.
All Lineages Algae (327) Bryophytes (11036) Lycophytes/Ferns (622) Gymnosperms (2088) Basal angiosperms (2815) Monocots (36340) Eudicots (124277)
Algae
Hits327
Bryophytes
Hits11036
Lycophytes/Ferns
Hits622
Gymnosperms
Hits2088
Basal angiosperms
Hits2815
Monocots
Hits36340
Eudicots
Hits124277
Species Distribution
Triticum turgidum
Triticum aestivum
Hordeum vulgare
Aegilops tauschii
Rhynchospora pubera
Avena sativa
Fragaria ananassa
Eragrostis nindensis
Pinus taeda
Diospyros kaki
Lineage Summary
Algae
327
Bryophytes
11036
Lycophytes/Ferns
622
Gymnosperms
2088
Basal angiosperms
2815
Monocots
36340
Eudicots
124277
Module Gene List
GeneSpeciesProtein ID
Aalbaalba5_s000007520007020.1 abies_alba Aalbaalba5_s000007520007020.1
Aalbaalba5_s000013640012440.1 abies_alba Aalbaalba5_s000013640012440.1
Aalbaalba5_s000013640012450.1 abies_alba Aalbaalba5_s000013640012450.1
Aalbaalba5_s000017990016050.1 abies_alba Aalbaalba5_s000017990016050.1
Aalbaalba5_s000041920033940.1 abies_alba Aalbaalba5_s000041920033940.1
Aalbaalba5_s000046950037040.1 abies_alba Aalbaalba5_s000046950037040.1
Aalbaalba5_s000100720070700.1 abies_alba Aalbaalba5_s000100720070700.1
Aalbaalba5_s000122250081890.1 abies_alba Aalbaalba5_s000122250081890.1
Aalbaalba5_s000125880083990.1 abies_alba Aalbaalba5_s000125880083990.1
Aalbaalba5_s000156160099860.1 abies_alba Aalbaalba5_s000156160099860.1
Aalbaalba5_s000164550103910.1 abies_alba Aalbaalba5_s000164550103910.1
Aalbaalba5_s000166900105200.1 abies_alba Aalbaalba5_s000166900105200.1
Aalbaalba5_s000166900105230.1 abies_alba Aalbaalba5_s000166900105230.1
Aalbaalba5_s000179310111500.1 abies_alba Aalbaalba5_s000179310111500.1
Aalbaalba5_s000179500111610.1 abies_alba Aalbaalba5_s000179500111610.1
Aalbaalba5_s000181730113030.2 abies_alba Aalbaalba5_s000181730113030.2
Aalbaalba5_s000187740116110.1 abies_alba Aalbaalba5_s000187740116110.1
Aalbaalba5_s000200900122390.1 abies_alba Aalbaalba5_s000200900122390.1
Aalbaalba5_s000232890136910.1 abies_alba Aalbaalba5_s000232890136910.1
Aalbaalba5_s000270510153650.1 abies_alba Aalbaalba5_s000270510153650.1
Aalbaalba5_s000282230158690.1 abies_alba Aalbaalba5_s000282230158690.1
Aalbaalba5_s000318410174510.1 abies_alba Aalbaalba5_s000318410174510.1
Aalbaalba5_s000349670187870.1 abies_alba Aalbaalba5_s000349670187870.1
Aalbaalba5_s000382280201780.1 abies_alba Aalbaalba5_s000382280201780.1
Aalbaalba5_s000408340212780.1 abies_alba Aalbaalba5_s000408340212780.1
Aalbaalba5_s000474090240530.1 abies_alba Aalbaalba5_s000474090240530.1
Aalbaalba5_s000475900241280.1 abies_alba Aalbaalba5_s000475900241280.1
Aalbaalba5_s000481530243720.1 abies_alba Aalbaalba5_s000481530243720.1
Aalbaalba5_s000481650243790.1 abies_alba Aalbaalba5_s000481650243790.1
Aalbaalba5_s000499710250430.1 abies_alba Aalbaalba5_s000499710250430.1