PlantTFDB
Plant Transcription Factor Database
v5.0
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_03129.1_g00002.1
Organism
Taxonomic ID
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: 605aa    MW: 67728.2 Da    PI: 5.4425
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_03129.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH45.61.3e-14412459355
                              HHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
                      HLH   3 rahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                              ++h   Er+RR+++N++f +Lr+++P+ +      K +K++iL  ++eY+++Lq
  Rsa1.0_03129.1_g00002.1 412 ANHALSERKRREKLNDRFITLRSMIPSiS------KTDKVSILDDTIEYLQELQ 459
                              58999**********************66......******************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142153.2E-5213202IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088817.358409458IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474597.07E-19411477IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.0E-12412459IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.104.8E-18413471IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.52E-15413463No hitNo description
SMARTSM003538.2E-18415464IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009957Biological Processepidermal cell fate specification
GO:0005634Cellular Componentnucleus
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 605 aa     Download sequence    Send to blast
MATVENRMMP ENLKKHLAVS VRNIQWSYGI FWSVSASQPG LLEWGDGYYN GDIKTRKTVQ  60
ASEVKADQLG LERSEQLREL YESLSLAESS TSCGSQVNRR ASASSLSPED LTDTEWYYLV  120
CMSFVFNIGE GVPGGVLANG QPIWLCNAHT ADSKVFTRSL LAKSASLLTV VCFPFLGGVL  180
EIGTTEHVAE NLNVIQCVKT LFLEAPHGTL STRSDYQEIF DPLSHDKYIP VFGTEAFPTT  240
STSVYELEPD DHDSFINGGG ASQVQSWQFV GEELSNCVHQ PLNSSDCVSQ TFVGTTGRVT  300
CGPRKSRNQR LDQIQEQNNR VNMDDDVHYQ GVISTIFKTT HQLVLGPQFQ NFDKRSSFTR  360
WRRSSLSAKT LGEKSQNMLK KIISEVPRMH QKKALLPDTP EDSGFKVGDE TANHALSERK  420
RREKLNDRFI TLRSMIPSIS KTDKVSILDD TIEYLQELQR RVQELESCRE SDGKEMRMAM  480
KRKKMEDEDE RVSANCLKSK RKESESDVNV EEDEPADTGY AGLTDNLRIG SFGNEVVIEL  540
RCAWREGILL EIMDVISDLN LDSHSVQSST GDGLLCLTVN CKHKGTKIAT TGVIQNALQR  600
VAWIC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4rqw_A2e-142620224192Transcription factor MYC3
4rqw_B2e-142620224192Transcription factor MYC3
4rs9_A2e-142620224192Transcription factor MYC3
4yz6_A2e-142620224192Transcription factor MYC3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1417422ERKRRE
2418423RKRREK
Functional Description ? help Back to Top
Source Description
UniProtTranscription 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
SourceLink
PlantRegMapRsa1.0_03129.1_g00002.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: 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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF1882070.0KF188207.1 Brassica villosa BVEGL3-1 (BVEGL3-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018453023.10.0PREDICTED: transcription factor EGL1-like
SwissprotQ9CAD00.0EGL1_ARATH; Transcription factor EGL1
TrEMBLC4WRH00.0C4WRH0_RAPSA; Putative transcription factor
STRINGBra027653.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM25922867
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G63650.30.0bHLH family protein
Publications ? help Back to Top
  1. Desloire S, et al.
    Identification of the fertility restoration locus, Rfo, in radish, as a member of the pentatricopeptide-repeat protein family.
    EMBO Rep., 2003. 4(6): p. 588-94
    [PMID:12740605]
  2. Uyttewaal M, et al.
    Characterization of Raphanus sativus pentatricopeptide repeat proteins encoded by the fertility restorer locus for Ogura cytoplasmic male sterility.
    Plant Cell, 2008. 20(12): p. 3331-45
    [PMID:19098270]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. 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]
  9. 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]
  10. 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]
  11. 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]
  12. 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]
  13. 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]