PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

489834

Common Name

ARALYDRAFT_489834

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

bHLH

Protein Properties

Length: 519aa MW: 59146 Da PI: 5.9446

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
489834	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	41	3.3e-13	363	409	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +h +ErrRR+++N++f +Lr+++P +K++K++iL ++ Y+++L+ 489834 363 NHVVAERRRREKLNEKFITLRSMVPFV-----TKMDKVSILGDTIAYVNHLR 409 6999********************8.....8***************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	6.1E-54	20	201	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	16.596	359	408	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	9.68E-18	362	425	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	7.57E-13	362	413	No hit	No description
Gene3D	G3DSA:4.10.280.10	8.4E-19	363	426	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.2E-10	363	408	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	7.4E-17	365	414	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010026	Biological Process	trichome differentiation
GO:0010214	Biological Process	seed coat development
GO:2000029	Biological Process	regulation of proanthocyanidin biosynthetic process
GO:0000976	Molecular Function	transcription regulatory region sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 519 aa Download sequence Send to blast
MDESSIIPAE KVAGAEKREL QGLLKTAVQF VEWTYSVFWQ FCPQQRVLVW ASGYYNGAIK 60 TRKTTQPAEV TAEEAALERS QQLRELYETL LAGESTSEAR ACTALSPEDL TETEWFYLMC 120 VSFSFPPPSG MPGKAYARRK HVWLSGANEV DSKTFSRAIL AKSAKIQTVV CIPMLDGVVE 180 LGTTKKVRED VEFVELIKSF FHDHCKSNPK PALSEHSTYQ VHEEAEEEEV EEEITMSEEM 240 RLGSPDDDDV SNQNLHSDLH IESTHTLDTH MDMMNLVEEG GNYSQTVTTL LISHPTSLLS 300 DSVSTSSYVQ SSFATWRVEN VKDHQRVEKA ASSSQWMLKH MILRVPFLHD NTKDKRLPRE 360 ELNHVVAERR RREKLNEKFI TLRSMVPFVT KMDKVSILGD TIAYVNHLRK RVHELESTHH 420 EQQHKRTRTC KRKTSEEVEV SIIESDVLLE MRCEYRDGLL LDILQVLHEL GIETTAVHTA 480 VNDLDFEAEI RAKVRGKKAS IAEVKRAIHQ VIIHDTNL*

Sequence ? help Back to Top

Protein Sequence Length: 519 aa Download sequence Send to blast

MDESSIIPAE KVAGAEKREL QGLLKTAVQF VEWTYSVFWQ FCPQQRVLVW ASGYYNGAIK  60
TRKTTQPAEV TAEEAALERS QQLRELYETL LAGESTSEAR ACTALSPEDL TETEWFYLMC  120
VSFSFPPPSG MPGKAYARRK HVWLSGANEV DSKTFSRAIL AKSAKIQTVV CIPMLDGVVE  180
LGTTKKVRED VEFVELIKSF FHDHCKSNPK PALSEHSTYQ VHEEAEEEEV EEEITMSEEM  240
RLGSPDDDDV SNQNLHSDLH IESTHTLDTH MDMMNLVEEG GNYSQTVTTL LISHPTSLLS  300
DSVSTSSYVQ SSFATWRVEN VKDHQRVEKA ASSSQWMLKH MILRVPFLHD NTKDKRLPRE  360
ELNHVVAERR RREKLNEKFI TLRSMVPFVT KMDKVSILGD TIAYVNHLRK RVHELESTHH  420
EQQHKRTRTC KRKTSEEVEV SIIESDVLLE MRCEYRDGLL LDILQVLHEL GIETTAVHTA  480
VNDLDFEAEI RAKVRGKKAS IAEVKRAIHQ VIIHDTNL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	6e-21	17	202	10	193	Transcription factor MYC3
4rqw_B	6e-21	17	202	10	193	Transcription factor MYC3
4rs9_A	6e-21	17	202	10	193	Transcription factor MYC3
4yz6_A	6e-21	17	202	10	193	Transcription factor MYC3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	367	372	ERRRRE
2	368	373	RRRREK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator, when associated with MYB75/PAP1 or MYB90/PAP2. Involved in the control of flavonoid pigmentation. Plays a key role in regulating leucoanthocyanidin reductase (BANYULS) and dihydroflavonol-4-reductase (DFR). Not required for leucoanthocyanidin dioxygenase (LDOX) expression. {ECO:0000269\|PubMed:15361138}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	489834

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AJ277509	0.0	AJ277509.1 Arabidopsis thaliana mRNA for transparent testa 8 bHLH protein, (tt8 gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002872462.1	0.0	transcription factor TT8
Swissprot	Q9FT81	0.0	TT8_ARATH; Transcription factor TT8
TrEMBL	D7LXD5	0.0	D7LXD5_ARALL; Uncharacterized protein
STRING	fgenesh2_kg.6__2968__AT4G09820.1	0.0	(Arabidopsis lyrata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9422	28	36

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G09820.1	0.0	bHLH family protein

Link Out ? help Back to Top
Phytozome	489834
Entrez Gene	9310658

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Kim K,Jiang K,Teng SL,Feldman LJ,Huang H Using biologically interrelated experiments to identify pathway genes in Arabidopsis. Bioinformatics, 2012. 28(6): p. 815-22 [PMID:22271267] Liu Z,Shi MZ,Xie DY Regulation of anthocyanin biosynthesis in Arabidopsis thaliana red pap1-D cells metabolically programmed by auxins. Planta, 2014. 239(4): p. 765-81 [PMID:24370633] Ranocha P,Francoz E,Burlat V,Dunand C Expression of PRX36, PMEI6 and SBT1.7 is controlled by complex transcription factor regulatory networks for proper seed coat mucilage extrusion. Plant Signal Behav, 2014. 9(11): p. e977734 [PMID:25531128] Zhu Z, et al. Characterization of the cis elements in the proximal promoter regions of the anthocyanin pathway genes reveals a common regulatory logic that governs pathway regulation. J. Exp. Bot., 2015. 66(13): p. 3775-89 [PMID:25911741] Zhu Q, et al. Ectopic Expression of the Coleus R2R3 MYB-Type Proanthocyanidin Regulator Gene SsMYB3 Alters the Flower Color in Transgenic Tobacco. PLoS ONE, 2015. 10(10): p. e0139392 [PMID:26448466] Li P, et al. Regulation of anthocyanin and proanthocyanidin biosynthesis by Medicago truncatula bHLH transcription factor MtTT8. New Phytol., 2016. 210(3): p. 905-21 [PMID:26725247] Bulgakov VP,Veremeichik GN,Grigorchuk VP,Rybin VG,Shkryl YN The rolB gene activates secondary metabolism in Arabidopsis calli via selective activation of genes encoding MYB and bHLH transcription factors. Plant Physiol. Biochem., 2016. 102: p. 70-9 [PMID:26913794] Petridis A,Döll S,Nichelmann L,Bilger W,Mock HP Arabidopsis thaliana G2-LIKE FLAVONOID REGULATOR and BRASSINOSTEROID ENHANCED EXPRESSION1 are low-temperature regulators of flavonoid accumulation. New Phytol., 2016. 211(3): p. 912-25 [PMID:27125220] Rai A, et al. Coordinate Regulation of Metabolite Glycosylation and Stress Hormone Biosynthesis by TT8 in Arabidopsis. Plant Physiol., 2016. 171(4): p. 2499-515 [PMID:27432888] Li Y, et al. Two IIIf Clade-bHLHs from Freesia hybrida Play Divergent Roles in Flavonoid Biosynthesis and Trichome Formation when Ectopically Expressed in Arabidopsis. Sci Rep, 2016. 6: p. 30514 [PMID:27465838] Mahmood K,Xu Z,El-Kereamy A,Casaretto JA,Rothstein SJ The Arabidopsis Transcription Factor ANAC032 Represses Anthocyanin Biosynthesis in Response to High Sucrose and Oxidative and Abiotic Stresses. Front Plant Sci, 2016. 7: p. 1548 [PMID:27790239] Zou B, et al. Calmodulin-binding protein CBP60g functions as a negative regulator in Arabidopsis anthocyanin accumulation. PLoS ONE, 2017. 12(3): p. e0173129 [PMID:28253311] Chen K,Liu H,Lou Q,Liu Y Ectopic Expression of the Grape Hyacinth (Muscari armeniacum) R2R3-MYB Transcription Factor Gene, MaAN2, Induces Anthocyanin Accumulation in Tobacco. Front Plant Sci, 2017. 8: p. 965 [PMID:28642775] Kataya ARA, et al. PLATINUM SENSITIVE 2 LIKE impacts growth, root morphology, seed set, and stress responses. PLoS ONE, 2017. 12(7): p. e0180478 [PMID:28678890] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470] Feng K, et al. An R2R3-MYB transcription factor, OjMYB1, functions in anthocyanin biosynthesis in Oenanthe javanica. Planta, 2018. 247(2): p. 301-315 [PMID:28965159] Wen J, et al. The C-terminal domains of Arabidopsis GL3/EGL3/TT8 interact with JAZ proteins and mediate dimeric interactions. Plant Signal Behav, 2018. 13(1): p. e1422460 [PMID:29293407]