PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009102547.1
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; Brassica
Family bHLH
Protein Properties Length: 390aa    MW: 44279.8 Da    PI: 5.4856
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009102547.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH36.68.1e-12184235155
                     CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
             HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                     +r ah ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i+  ++e++++L+
  XP_009102547.1 184 QRLAHIAVERNRRKQMNEHLCVLRSLMPGS---YVQRRDQASIVGGVIEFLSELE 235
                     699***************************...9*****************9985 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000835.83E-12182239No hitNo description
Gene3DG3DSA:4.10.280.102.0E-11182238IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474595.63E-15183247IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088814.259183234IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.7E-9184235IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003536.2E-7189240IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 390 aa     Download sequence    Send to blast
MDKDYPAPNF LSEYSCSNDD NSSGMIDHMF KRNLQKQKQS MPQQQQLSPS GFGATPTFDK  60
MSFADVMQFA DFGPMLALNQ TRSQNDQETW MDPFYILKFP VFNGDHNQTH HIMSQEGGGC  120
EGNISNVFLE EQDNQEEKND KNSMQLRFIG EEEDRENKND TTKEVKKKRK RARTSKTSEE  180
VESQRLAHIA VERNRRKQMN EHLCVLRSLM PGSYVQRRDQ ASIVGGVIEF LSELEQLLQC  240
LESQKRRRIL GETNDIHGGD MTTTVITSSA ITSSNPLIIT GNVTELEGGG GIQEETAEKK  300
SCLADVEVKL LGFNAMIKIL SRRRPRQLIM TIAALEDLHL SILHTNITTM EQTVLYSFNV  360
KITSETRFTA EDIASSIQEI YSFIHANSTM
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1244248KRRRI
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Not expressed in meristemoids, but strongly expressed in guard mother cells (GMCs) and in young guard cells (at protein level) (PubMed:17088607). Expressed at the transition to terminal stomatal differentiation, just before and after the symmetric division of stomatal differentiation, being confined to late-stage GMC and to young, still differentiating guard cells (PubMed:24571519). {ECO:0000269|PubMed:17088607, ECO:0000269|PubMed:24571519}.
UniprotTISSUE SPECIFICITY: Resctricted to stomatal cell lineages (at protein level). Expressed in roots, leaves, stems, and flowers. {ECO:0000269|PubMed:12679534, ECO:0000269|PubMed:17088607}.
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
PlantRegMapXP_009102547.1
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
GenBankAB4936311e-120AB493631.1 Arabidopsis thaliana At3g24140 mRNA for hypothetical protein, partial cds, clone: RAAt3g24140.
GenBankAF4886241e-120AF488624.1 Arabidopsis thaliana clone bHLH097 putative bHLH transcription factor mRNA, partial sequence.
GenBankAK2213241e-120AK221324.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor, complete cds, clone: RAFL25-14-O10.
GenBankBT0289611e-120BT028961.1 Arabidopsis thaliana At3g24140 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009102547.10.0PREDICTED: transcription factor FAMA
RefseqXP_013752047.10.0transcription factor FAMA-like
SwissprotQ56YJ80.0FAMA_ARATH; Transcription factor FAMA
TrEMBLA0A3P6AZX70.0A0A3P6AZX7_BRACM; Uncharacterized protein
STRINGBo7g037540.10.0(Brassica oleracea)
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-180bHLH 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]