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.0026s0026.1.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: 416aa    MW: 46386.6 Da    PI: 4.9506
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0026s0026.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH382.9e-12197248155
                          CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                          +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e++++L+
  Cagra.0026s0026.1.p 197 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 248
                          79****************************...9*****************9995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.101.5E-13195251IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000835.71E-13195252No hitNo description
PROSITE profilePS5088815.428196247IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.49E-16196261IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.3E-9197248IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.4E-9202253IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048730.00177330394No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010377Biological Processguard cell fate commitment
GO:0045597Biological Processpositive regulation of cell differentiation
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051782Biological Processnegative regulation of cell division
GO:0005634Cellular Componentnucleus
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 416 aa     Download sequence    Send to blast
MDKDYSAPNF LGESSGGNED NSSGMIDYMF NRNLQQQQKQ SMPQQQQHQL SPTGFGTTPS  60
FDKMNFADVM QFADFGPKLA LNQTRNQEDQ ESGIDPVYFL KFPVLNDKIE DHNQTQHLMP  120
SHQTSQEGGE CGGNIGNVFL EEQEDQDDDN DNNSVQLRFI GGGEEEDREN KNVTTKEVKS  180
KRKRARTSKT SEEVESQRMT HIAVERNRRK QMNEHLRVLR SLMPGSYVQR GDQASIIGGA  240
IEFVRELEQL LQCLESQKRR RILGETGRDM TTTTTSSSSP IAAVANQAQP LIINGNVTEL  300
EGGGGLREET AENKSCLADV EVKLLGFDAM IKILSRRRPG QLIKTIAALE DLHLSILHTN  360
ITTMEQTVLY SFNVKITSET RFTAEDIASS IQQIFSFIHA NTNISGSSNL GNVFA*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1197208RMTHIAVERNRR
2257261KRRRI
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator (PubMed:17088607, PubMed:17183265, PubMed:17183267). Together with MYB88 and MYB124, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Together with SPCH and MUTE, regulates the stomata formation. Required to promote differentiation and morphogenesis of stomatal guard cells and to halt proliferative divisions in their immediate precursors. Mediates the formation of stomata (PubMed:17088607, PubMed:17183265, PubMed:17183267). Prevents histone H3K27me3 marks and derepresses stem cell gene expression (PubMed:24654956). {ECO:0000269|PubMed:17088607, ECO:0000269|PubMed:17183265, ECO:0000269|PubMed:17183267, ECO:0000269|PubMed:24571519, ECO:0000269|PubMed:24654956}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.0026s0026.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Inhibited by low relative humidity (LRH) via epigenetic CG methylation, thus leading to a reduced stomatal index. {ECO:0000269|PubMed:22442411}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2213240.0AK221324.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor, complete cds, clone: RAFL25-14-O10.
GenBankBT0289610.0BT028961.1 Arabidopsis thaliana At3g24140 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010513159.10.0PREDICTED: transcription factor FAMA
RefseqXP_010513165.10.0PREDICTED: transcription factor FAMA
SwissprotQ56YJ80.0FAMA_ARATH; Transcription factor FAMA
TrEMBLR0HLV10.0R0HLV1_9BRAS; Uncharacterized protein
STRINGCagra.0026s0026.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM55482649
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24140.10.0bHLH 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. Matos JL, et al.
    Irreversible fate commitment in the Arabidopsis stomatal lineage requires a FAMA and RETINOBLASTOMA-RELATED module.
    Elife, 2015.
    [PMID:25303364]
  3. Chen L, et al.
    NRPB3, the third largest subunit of RNA polymerase II, is essential for stomatal patterning and differentiation in Arabidopsis.
    Development, 2016. 143(9): p. 1600-11
    [PMID:26989174]
  4. Lee JH,Jung JH,Park CM
    Light Inhibits COP1-Mediated Degradation of ICE Transcription Factors to Induce Stomatal Development in Arabidopsis.
    Plant Cell, 2017. 29(11): p. 2817-2830
    [PMID:29070509]
  5. Han X, et al.
    Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons.
    Plant Physiol., 2018. 176(4): p. 2871-2885
    [PMID:29496884]
  6. Li X,Yang R,Chen H
    The Arabidopsis thaliana Mediator subunit MED8 regulates plant immunity to Botrytis Cinerea through interacting with the basic helix-loop-helix (bHLH) transcription factor FAMA.
    PLoS ONE, 2018. 13(3): p. e0193458
    [PMID:29513733]