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

474990

Common Name

ARALYDRAFT_474990

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: 597aa MW: 66694.9 Da PI: 4.8548

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
474990	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	44.8	2.3e-14	405	451	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 +h E++RR+++N++f +Lr+++P+ + K +K++iL ++eY+++Lq 474990 405 NHALSEKKRREKLNERFMTLRSIIPSiS------KIDKVSILDDTIEYLQELQ 451 79999*******************66......****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	1.1E-53	13	202	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	16.914	401	450	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	7.6E-12	405	451	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.26E-15	405	455	No hit	No description
SuperFamily	SSF47459	3.4E-18	405	468	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	8.7E-18	405	468	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	7.2E-17	407	456	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009957	Biological Process	epidermal cell fate specification
GO:0005634	Cellular Component	nucleus
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 597 aa Download sequence Send to blast
MATGENRTVP ENLKKQLAVS VRNIQWSYGI FWSVSASQPG VLEWGDGYYN GDIKTRKTIQ 60 AAEVKVDQLG LERSEQLREL YESLSLAESS TSGGSQVTRR AFAAALSPED LTDTEWYYLV 120 CMSFVFNIGE GIPGGALSNG EPIWLCNAET ADSKVFTRSL LAKSASLQTV VCFPFLGGVL 180 EIGTTEHIKE DLNVIQSVKT LFLEATPYTT ISTRSDYQEI FDPLSDDKYT PVFRTEAFPT 240 TSTSGFEQEP EDHDSFINDG GASQVQSWHF VGEELSNCIH QSLNSSDCVS QTFVGTTGRV 300 ACDPRKSRVQ RLGQIQEQSN HVNMDDDVHY QGVISTIFKT THQLILGPQF QNFDKQSSFT 360 RWKRSSSVKT LGEKSQKMIK KILFEVPLMN KKEELLPDTP EETGNHALSE KKRREKLNER 420 FMTLRSIIPS ISKIDKVSIL DDTIEYLQEL QKRVQELESC RESADTETRM TTMKRKKPED 480 EEERASANCM NSKRKGSDVN VGEDEPNDTG YAGLTDNLRI SSLGNEVVVE LRCAWREGIL 540 LEIMDVISDL NLDSHSVQSS TGDGLLCLTV NCKHKGTKIA TTGMIQEALQ RVAWIC*

Sequence ? help Back to Top

Protein Sequence Length: 597 aa Download sequence Send to blast

MATGENRTVP ENLKKQLAVS VRNIQWSYGI FWSVSASQPG VLEWGDGYYN GDIKTRKTIQ  60
AAEVKVDQLG LERSEQLREL YESLSLAESS TSGGSQVTRR AFAAALSPED LTDTEWYYLV  120
CMSFVFNIGE GIPGGALSNG EPIWLCNAET ADSKVFTRSL LAKSASLQTV VCFPFLGGVL  180
EIGTTEHIKE DLNVIQSVKT LFLEATPYTT ISTRSDYQEI FDPLSDDKYT PVFRTEAFPT  240
TSTSGFEQEP EDHDSFINDG GASQVQSWHF VGEELSNCIH QSLNSSDCVS QTFVGTTGRV  300
ACDPRKSRVQ RLGQIQEQSN HVNMDDDVHY QGVISTIFKT THQLILGPQF QNFDKQSSFT  360
RWKRSSSVKT LGEKSQKMIK KILFEVPLMN KKEELLPDTP EETGNHALSE KKRREKLNER  420
FMTLRSIIPS ISKIDKVSIL DDTIEYLQEL QKRVQELESC RESADTETRM TTMKRKKPED  480
EEERASANCM NSKRKGSDVN VGEDEPNDTG YAGLTDNLRI SSLGNEVVVE LRCAWREGIL  540
LEIMDVISDL NLDSHSVQSS TGDGLLCLTV NCKHKGTKIA TTGMIQEALQ RVAWIC*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	3e-16	26	202	24	192	Transcription factor MYC3
4rqw_B	3e-16	26	202	24	192	Transcription factor MYC3
4rs9_A	3e-16	26	202	24	192	Transcription factor MYC3
4yz6_A	3e-16	26	202	24	192	Transcription factor MYC3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	410	415	KKRREK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator, when associated with MYB75/PAP1, MYB90/PAP2 or TT2. Involved in epidermal cell fate specification. Regulates negatively stomata formation but promotes trichome formation. Together with MYB66/WER, promotes the formation of non-hair cells in root epidermis cells in the N position. Whereas together with CPC, promotes the formation of hair cells in root epidermis cells in the H position by inhibiting non-hair cell formation. Seems also to play a role in the activation of anthocyanin biosynthesis, probably together with MYB75/PAP1. Involved in seed mucilage production. Activates the transcription of GL2. {ECO:0000269\|PubMed:12917293, ECO:0000269\|PubMed:12956536, ECO:0000269\|PubMed:14627722, ECO:0000269\|PubMed:15361138, ECO:0000269\|PubMed:15590742}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	474990

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By UV treatment. Negatively regulated by MYB66/WER, GL3 and BHLH2 in the developing non-hair cells, and positively regulated by CPC and TRY in the developing hair cells. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:15590742}.

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	AF251687	0.0	AF251687.1 Arabidopsis thaliana putative transcription factor BHLH2 (BHLH2) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020865783.1	0.0	transcription factor EGL1
Swissprot	Q9CAD0	0.0	EGL1_ARATH; Transcription factor EGL1
TrEMBL	D7KTF4	0.0	D7KTF4_ARALL; Uncharacterized protein
STRING	fgenesh2_kg.2__120__AT1G63650.2	0.0	(Arabidopsis lyrata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2592	28	67

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G63650.3	0.0	bHLH family protein

Link Out ? help Back to Top
Phytozome	474990
Entrez Gene	9322461

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] 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] Nayidu NK, et al. Comparison of five major trichome regulatory genes in Brassica villosa with orthologues within the Brassicaceae. PLoS ONE, 2014. 9(4): p. e95877 [PMID:24755905] Cheng Y, et al. Brassinosteroids control root epidermal cell fate via direct regulation of a MYB-bHLH-WD40 complex by GSK3-like kinases. Elife, 2018. [PMID:24771765] 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] Nemie-Feyissa D,Heidari B,Blaise M,Lillo C Analysis of interactions between heterologously produced bHLH and MYB proteins that regulate anthocyanin biosynthesis: quantitative interaction kinetics by Microscale Thermophoresis. Phytochemistry, 2015. 111: p. 21-6 [PMID:25659750] Kwak SH,Song SK,Lee MM,Schiefelbein J TORNADO1 regulates root epidermal patterning through the WEREWOLF pathway in Arabidopsis thaliana. Plant Signal Behav, 2015. 10(12): p. e1103407 [PMID:26451798] Dai X, et al. A single amino acid substitution in the R3 domain of GLABRA1 leads to inhibition of trichome formation in Arabidopsis without affecting its interaction with GLABRA3. Plant Cell Environ., 2016. 39(4): p. 897-907 [PMID:26667588] Friede A, et al. The Second Intron Is Essential for the Transcriptional Control of the Arabidopsis thaliana GLABRA3 Gene in Leaves. Front Plant Sci, 2017. 8: p. 1382 [PMID:28848584] 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]