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 676794544
Organism
Sisymbrium irio
Taxonomic ID
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: 377aa    MW: 42392.5 Da    PI: 5.6461
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676794544genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH38.22.5e-12191242155
                CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
        HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e++++L+
  676794544 191 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 242
                79****************************...9*****************9995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.101.3E-13189245IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.79E-12189246No hitNo description
PROSITE profilePS5088815.428190241IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.96E-16190255IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.2E-9191242IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.4E-9196247IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048730.00901324373No 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: 377 aa     Download sequence    Send to blast
MDKDYSGPNF LGESSGGNDD HSSGMIDYMF NRNLQQQKQS MPQQQQLSPS GFGATSTFDK  60
MSFADVMQFA DFGPKLALNQ TRNHEDQETG MDPVYFLKFP VLNDKIEDHN QTHHLMSQEG  120
GGCEGNIGNV NVFLEEKENQ EDENDNNSVK LRFIGEEEEE DRENKNVTTK EVKSKRKRAR  180
TSKTSEEVES QRMTHIAVER NRRKQMNEHL RVLRSLMPGS YVQRGDQASI IGGAIEFVRE  240
LEQLLQCLES QKRRRILGET GNRHVGDMTT TTSTSSPITS VANPLIITGN VTELEGGGGL  300
REETAEKKSC LADVEVKLLG LDAMIKILSR RRPGQLIKTI AALEDLHLSI LHTNITTMEQ  360
TVLYSFNVKA SFHLLAL
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1191202RMTHIAVERNRR
2251255KRRRI
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
PlantRegMap676794544
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_009106193.10.0PREDICTED: transcription factor FAMA-like
RefseqXP_009106201.10.0PREDICTED: transcription factor FAMA-like
SwissprotQ56YJ80.0FAMA_ARATH; Transcription factor FAMA
TrEMBLM4EHU20.0M4EHU2_BRARP; Uncharacterized protein
STRINGBra028357.1-P0.0(Brassica rapa)
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
AT3G24140.11e-169bHLH 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]