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
PAL104
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
C4H2
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
4CL308
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
CHS55
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
CHI56
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
F3H111
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/CYP75B169 F3'5'H/CYP75A11
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
FNS1 IFS IFR50 FLS
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
DFR47 ANS/LDOX8 UFGT73 ANR4
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 (999)
Current lineage filter: Algae. All species, family, module, and gene statistics below have been narrowed to this lineage.
Algae
Hits999
Bryophytes
Hits0
Lycophytes/Ferns
Hits0
Gymnosperms
Hits0
Basal angiosperms
Hits0
Monocots
Hits0
Eudicots
Hits0
Species Distribution
Chara braunii
Takakia lepidozioides
Botryococcus braunii
Ptychomnion cygnisetum
Chromochloris zofingiensis
Chlamydomonas reinhardtii
Dunaliella salina
Cyanophora paradoxa
Chlamydomonas schloesseri
Chlorokybus atmophyticus
Lineage Summary
Algae
999
Module Gene List
Reset
GeneSpeciesProtein ID
TlepHiC_scaffold_50215560 takakia_lepidozioides TlepHiC_scaffold_50215560
TlepHiC_scaffold_50215570 takakia_lepidozioides TlepHiC_scaffold_50215570
TlepHiC_scaffold_50215590 takakia_lepidozioides TlepHiC_scaffold_50215590
TlepHiC_scaffold_50215600 takakia_lepidozioides TlepHiC_scaffold_50215600
TlepHiC_scaffold_50215740 takakia_lepidozioides TlepHiC_scaffold_50215740
TlepHiC_scaffold_50215860 takakia_lepidozioides TlepHiC_scaffold_50215860
TlepHiC_scaffold_50215870 takakia_lepidozioides TlepHiC_scaffold_50215870
TlepHiC_scaffold_50216290 takakia_lepidozioides TlepHiC_scaffold_50216290
TlepHiC_scaffold_50216520 takakia_lepidozioides TlepHiC_scaffold_50216520
TlepHiC_scaffold_50216530 takakia_lepidozioides TlepHiC_scaffold_50216530
TlepHiC_scaffold_60225900 takakia_lepidozioides TlepHiC_scaffold_60225900
TlepHiC_scaffold_60226210 takakia_lepidozioides TlepHiC_scaffold_60226210
TlepHiC_scaffold_60228560 takakia_lepidozioides TlepHiC_scaffold_60228560
TlepHiC_scaffold_60232170 takakia_lepidozioides TlepHiC_scaffold_60232170
TlepHiC_scaffold_60235390 takakia_lepidozioides TlepHiC_scaffold_60235390
TlepHiC_scaffold_60237660 takakia_lepidozioides TlepHiC_scaffold_60237660
TlepHiC_scaffold_60242050 takakia_lepidozioides TlepHiC_scaffold_60242050
TlepHiC_scaffold_60249090 takakia_lepidozioides TlepHiC_scaffold_60249090
TlepHiC_scaffold_60251090 takakia_lepidozioides TlepHiC_scaffold_60251090
PNH06562.1_tsocial tetrabaena_socialis PNH06562.1_tsocial
jgi|Ulvmu1|12520|UM090_0007.1 ulva_mutabilis jgi|Ulvmu1|12520|UM090_0007.1
Vcarscaffold_10006740.1 volvox_carteri Vcarscaffold_10006740.1
Vcarscaffold_1220025390.1 volvox_carteri Vcarscaffold_1220025390.1
Aprocontig_KL6620850004550.1 auxenochlorella_protothecoides Aprocontig_KL6620850004550.1
Aprocontig_KL6620900008330.1 auxenochlorella_protothecoides Aprocontig_KL6620900008330.1
Aprocontig_KL6620920009190.1 auxenochlorella_protothecoides Aprocontig_KL6620920009190.1
Aprocontig_KL6621000011980.1 auxenochlorella_protothecoides Aprocontig_KL6621000011980.1
Aprocontig_KL6621000012160.1 auxenochlorella_protothecoides Aprocontig_KL6621000012160.1
Aprocontig_KL6621000012170.1 auxenochlorella_protothecoides Aprocontig_KL6621000012170.1
Aprocontig_KL6621060016250.1 auxenochlorella_protothecoides Aprocontig_KL6621060016250.1