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 Carubv10020221m
Common NameCARUB_v10019965mg
Organism
Capsella rubella
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: 477aa    MW: 53084 Da    PI: 4.8401
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10020221mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH45.31.5e-14284330455
                      HHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
              HLH   4 ahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                      +h   E++RR+++N++f +Lr+++P+ +      K +K++iL  ++eY+++Lq
  Carubv10020221m 284 NHALCEKKRREKLNERFMTLRSIIPSiS------KIDKVSILDDTIEYLQELQ 330
                      79999*********************66......******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142153.1E-24181IPR025610Transcription factor MYC/MYB N-terminal
PROSITE profilePS5088816.418280329IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000105.4E-12284330IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474593.53E-18284348IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000832.45E-15284334No hitNo description
Gene3DG3DSA:4.10.280.109.3E-18284347IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.3E-16286335IPR011598Myc-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: 477 aa     Download sequence    Send to blast
MSFVFNIGEG IPGGALTNGE PIWLCNAETA DSKVFTRSLL AKSASLQTVV CFPFLGGVLE  60
IGTTEHITED LNVIQCVKTL FLEAPPYPTI STRSDYQEVF DPLSDDKYIP VFGTEAFPTP  120
STSGFEQEPE DHDSFINDGG ASQVQSWQFV GEELSNCVHQ SLNSSDCVSQ TFVGPSGRVA  180
CDPRKSTVQR LGQIQEQGNH VNMDDDVHYQ GVISTIFKTT HQLILGPQFQ NFDKRSSFTR  240
WKRSSSVKTL GETSQKMIKK ILFEVPLMNK KEELLTDTPE ETGNHALCEK KRREKLNERF  300
MTLRSIIPSI SKIDKVSILD DTIEYLQELQ KRVQELESCR ESADTETRMT MMKRKKPEDE  360
DERASANCMN SKRKGSDVNV VGEDEPVSTG YAGLTDNLRI SSVGNEVVIE LRCAWREGIL  420
LEIMDVISDL NLDSHSVQSS TGDGLLCLTV NCKHKGTKIA TRGMIQEALQ KVAWIC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A5e-13280338462Transcription factor MYC2
5gnj_B5e-13280338462Transcription factor MYC2
5gnj_E5e-13280338462Transcription factor MYC2
5gnj_F5e-13280338462Transcription factor MYC2
5gnj_G5e-13280338462Transcription factor MYC2
5gnj_I5e-13280338462Transcription factor MYC2
5gnj_M5e-13280338462Transcription factor MYC2
5gnj_N5e-13280338462Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1289294KKRREK
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
PlantRegMapCarubv10020221m
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
GenBankAF2516870.0AF251687.1 Arabidopsis thaliana putative transcription factor BHLH2 (BHLH2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023643497.10.0transcription factor EGL1 isoform X2
SwissprotQ9CAD00.0EGL1_ARATH; Transcription factor EGL1
TrEMBLR0GDR60.0R0GDR6_9BRAS; Uncharacterized protein (Fragment)
STRINGCagra.2104s0007.1.p0.0(Capsella grandiflora)
STRINGXP_006300873.10.0(Capsella rubella)
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]