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

Rsa1.0_09229.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 401aa MW: 45476 Da PI: 5.8838

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_09229.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	48.4	1.7e-15	211	257	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +h Er+RR+++N++f +Lr+++P+ K +K++iL +++Y+++Lq Rsa1.0_09229.1_g00001.1 211 NHALTERKRREKLNDRFMTLRSIIPST-----SKIDKVSILDDTIDYLQKLQ 257 7999********************7.....6****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	17.06	207	256	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	6.51E-15	211	261	No hit	No description
SuperFamily	SSF47459	1.02E-18	211	277	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.8E-18	211	273	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	5.8E-13	211	257	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.5E-17	213	262	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 401 aa Download sequence Send to blast
MFNSHPYGTI STRSDYQEIF DPLNSDKYIL GTEAFPTTST SGFEQELEDH DSFINGGSAS 60 QVQSWQFVGE ELNNCVHQPL NSSDCVSQTL VGTTGRVSCN PRKSRTQRLS QIQEQSNRLN 120 MDDDVHYQGV ISTIFKTTHQ LILGPQFQNF DKRSSFTRWR RSSLSAKTLG EKSQNMIKKI 180 IFEVPRMHQK ELLLPNTPED NMFKVGDETG NHALTERKRR EKLNDRFMTL RSIIPSTSKI 240 DKVSILDDTI DYLQKLQRRV QELESCREYT DTEMRMPTKR KKSEDEDERA SANCLNTKRK 300 ESDVNVGEDE PADTGYAGLT DNLRIGLFGN EVVIELRCAR REGILLEIMD VISDLNLDSH 360 SVQSSTGDGL LCLTVNCKHK GTKIATTGMI QEALQGVAWI C

Sequence ? help Back to Top

Protein Sequence Length: 401 aa Download sequence Send to blast

MFNSHPYGTI STRSDYQEIF DPLNSDKYIL GTEAFPTTST SGFEQELEDH DSFINGGSAS  60
QVQSWQFVGE ELNNCVHQPL NSSDCVSQTL VGTTGRVSCN PRKSRTQRLS QIQEQSNRLN  120
MDDDVHYQGV ISTIFKTTHQ LILGPQFQNF DKRSSFTRWR RSSLSAKTLG EKSQNMIKKI  180
IFEVPRMHQK ELLLPNTPED NMFKVGDETG NHALTERKRR EKLNDRFMTL RSIIPSTSKI  240
DKVSILDDTI DYLQKLQRRV QELESCREYT DTEMRMPTKR KKSEDEDERA SANCLNTKRK  300
ESDVNVGEDE PADTGYAGLT DNLRIGLFGN EVVIELRCAR REGILLEIMD VISDLNLDSH  360
SVQSSTGDGL LCLTVNCKHK GTKIATTGMI QEALQGVAWI C

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	215	220	ERKRRE
2	216	221	RKRREK

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	Rsa1.0_09229.1_g00001.1

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018453342.1	0.0	PREDICTED: transcription factor EGL1 isoform X1
Refseq	XP_018453343.1	0.0	PREDICTED: transcription factor EGL1 isoform X2
Swissprot	Q9CAD0	0.0	EGL1_ARATH; Transcription factor EGL1
TrEMBL	A0A078F5I3	0.0	A0A078F5I3_BRANA; BnaC09g12820D protein
STRING	Bra027796.1-P	0.0	(Brassica rapa)

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

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]