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

676779886

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 643aa MW: 71907.9 Da PI: 5.0011

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676779886	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	46	9.1e-15	453	499	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 +h E++RR+++N++f +Lr+++P+ + K +K++iL ++eY+++Lq 676779886 453 NHALSEKKRREKLNDRFMTLRSIIPTiS------KIDKVSILDDTIEYLQELQ 499 79999*******************66......****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	7.9E-49	13	241	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	17.047	449	498	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.1E-12	453	499	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.44E-18	453	518	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	4.20E-16	453	503	No hit	No description
Gene3D	G3DSA:4.10.280.10	4.8E-18	453	517	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	6.6E-17	455	504	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: 643 aa Download sequence Send to blast
MAAGENRTVP ENLKKHLAVS VRNIQWSYGI FWSVSASQPG YISPNLYPFV LNLGFLGFVH 60 NHETLLIRIK NSDKNFFCLL LEWGDGYYNG DIKTRKTIQA AEVKADQLGL ERSEQLRELY 120 ESLSLAESST SGGSQVTRRA SAAALSPEDL TDTEWYYLVC MSFVFNIGEG IPGGALANGE 180 PIWLCNAHTA DSKVFTRSLL AKSASLLTVV CFPFLGGVLE IGTTEHITED LNVIQCVKTL 240 FLEAPTYGTI STRSDYQEIF DPLSDDKYIP VFGTEPFPTT STSGFEQEPD DHDSFINGGG 300 ASQVQSWQFV GEELSNCVHQ SFNSSDCVSQ TFVGTTGRVS CDPRKSRNHR LGQIQEQSNR 360 VNMDDDVHYQ GVISTIFKTT HQLVLGPQFQ NFDKRSSFTR WRRSSSSAIT SGEKSQNMLK 420 KIIFEVPRMN QKELLLPETP EDSGFKVGDE TGNHALSEKK RREKLNDRFM TLRSIIPTIS 480 KIDKVSILDD TIEYLQELQR RVQELESCRE STDTEMRMAM KRKKPEDEDE RASANCLNSK 540 RKESDMNVGE DEPADTGYAG LTDNLRIGSF GNEVVIELRC AWREGILLEI MDVISDLNLD 600 SHSVQSSTGD GLLCLTVNCK HKGTKIATTG MIQEALQKVA WIC

Sequence ? help Back to Top

Protein Sequence Length: 643 aa Download sequence Send to blast

MAAGENRTVP ENLKKHLAVS VRNIQWSYGI FWSVSASQPG YISPNLYPFV LNLGFLGFVH  60
NHETLLIRIK NSDKNFFCLL LEWGDGYYNG DIKTRKTIQA AEVKADQLGL ERSEQLRELY  120
ESLSLAESST SGGSQVTRRA SAAALSPEDL TDTEWYYLVC MSFVFNIGEG IPGGALANGE  180
PIWLCNAHTA DSKVFTRSLL AKSASLLTVV CFPFLGGVLE IGTTEHITED LNVIQCVKTL  240
FLEAPTYGTI STRSDYQEIF DPLSDDKYIP VFGTEPFPTT STSGFEQEPD DHDSFINGGG  300
ASQVQSWQFV GEELSNCVHQ SFNSSDCVSQ TFVGTTGRVS CDPRKSRNHR LGQIQEQSNR  360
VNMDDDVHYQ GVISTIFKTT HQLVLGPQFQ NFDKRSSFTR WRRSSSSAIT SGEKSQNMLK  420
KIIFEVPRMN QKELLLPETP EDSGFKVGDE TGNHALSEKK RREKLNDRFM TLRSIIPTIS  480
KIDKVSILDD TIEYLQELQR RVQELESCRE STDTEMRMAM KRKKPEDEDE RASANCLNSK  540
RKESDMNVGE DEPADTGYAG LTDNLRIGSF GNEVVIELRC AWREGILLEI MDVISDLNLD  600
SHSVQSSTGD GLLCLTVNCK HKGTKIATTG MIQEALQKVA WIC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	5e-13	79	241	45	192	Transcription factor MYC3
4rqw_B	5e-13	79	241	45	192	Transcription factor MYC3
4rs9_A	5e-13	79	241	45	192	Transcription factor MYC3
4yz6_A	5e-13	79	241	45	192	Transcription factor MYC3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	458	463	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	676779886

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	AK353217	0.0	AK353217.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-32-J06.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006391734.1	0.0	transcription factor EGL1
Swissprot	Q9CAD0	0.0	EGL1_ARATH; Transcription factor EGL1
TrEMBL	E4MXH0	0.0	E4MXH0_EUTHA; mRNA, clone: RTFL01-32-J06
TrEMBL	V4JUJ6	0.0	V4JUJ6_EUTSA; Uncharacterized protein
STRING	XP_006391734.1	0.0	(Eutrema salsugineum)

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]