PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cagra.2104s0007.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family bHLH
Protein Properties Length: 606aa    MW: 67585 Da    PI: 4.7183
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.2104s0007.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH44.92.1e-14413459455
                          HHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   4 ahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                          +h   E++RR+++N++f +Lr+++P+ +      K +K++iL  ++eY+++Lq
  Cagra.2104s0007.1.p 413 NHALCEKKRREKLNERFMTLRSIIPSiS------KIDKVSILDDTIEYLQELQ 459
                          79999*********************66......******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142151.3E-5321210IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088816.418409458IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000107.4E-12413459IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474594.97E-18413477IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.98E-15413463No hitNo description
Gene3DG3DSA:4.10.280.101.3E-17413476IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.3E-16415464IPR011598Myc-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: 606 aa     Download sequence    Send to blast
MLHGDEETMT TEENRTVPEN LKKQLAVSVR NIQWSYGIFW SVSPSQPGVL EWGDGYYNGD  60
IKTRKTIQAA EVKVDQLGLE RSEQLRELYE SLSLAESSAS GGSQVTRRAS AAALSPEDLT  120
DTEWYYLVCM SFVFNIGEGI PGGALTNGEP IWLCNAETAD SKVFTRSLLA KSASLQTVVC  180
FPFLGGVLEI GTTEHITEDL NVIQCVKTLF LEAPPYPTIS TRSDYQEVFD PLSDDKYIPV  240
FGTEAFPTPS TSGFEQEPED HDSFINDGGA SQVQSWQFVG EELSNCVHQS LNSSDCVSQT  300
FVGPSGRVAC DPRKSRVQRL GQIQEQGNHV NMDDDVHYQG VISTIFKTTH QLILGPQFQN  360
FDKRSSFTRW KRSSSVKTLG ETSQKMIKKI LFEVPLMNKK EELLTDTPEE TGNHALCEKK  420
RREKLNERFM TLRSIIPSIS KIDKVSILDD TIEYLQELQK RVQELESCRE SADTETRMTM  480
MKRKKPEDED ERASANCMNS KRKGSDVNVV GEDEPVSTGY AGLTDNLRIS SVGNEVVIEL  540
RCAWREGILL EIMDVISDLN LDSHSVQSST GDGLLCLTVN CKHKGTKIAT RGMIQEALQK  600
VAWIC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4rqw_A2e-163421024192Transcription factor MYC3
4rqw_B2e-163421024192Transcription factor MYC3
4rs9_A2e-163421024192Transcription factor MYC3
4yz6_A2e-163421024192Transcription factor MYC3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1418423KKRREK
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
PlantRegMapCagra.2104s0007.1.p
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
GenBankAF0277320.0AF027732.1 Arabidopsis thaliana bHLH protein (Atmyc-2) mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006300873.20.0transcription factor EGL1 isoform X1
SwissprotQ9CAD00.0EGL1_ARATH; Transcription factor EGL1
TrEMBLR0GDR60.0R0GDR6_9BRAS; Uncharacterized protein (Fragment)
STRINGCagra.2104s0007.1.p0.0(Capsella grandiflora)
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. 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]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]
  8. 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]
  9. 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]
  10. 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]
  11. 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]