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 Itr_sc000544.1_g00011.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family bHLH
Protein Properties Length: 388aa    MW: 42528.8 Da    PI: 4.9906
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000544.1_g00011.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH38.22.6e-12182233155
                              CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                      HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                              +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e++++L+
  Itr_sc000544.1_g00011.1 182 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 233
                              79****************************...9*****************9995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS512575132No hitNo description
Gene3DG3DSA:4.10.280.101.3E-13180236IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.23E-14180237No hitNo description
PROSITE profilePS5088815.428181232IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474599.68E-17181251IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.2E-9182233IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.4E-9187238IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
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: 388 aa     Download sequence    Send to blast
MEKEDNYTAS LAPSFPGLDY SSPHVGQTTT SCGNTNQVVD YMVNAHPTAP PQQPPLVPGF  60
CGGSTSLDKL SFADVMQFAD FGPKLGLNEA NKVSEEETGL DPVYFLKFPV LNEKVQGDDG  120
EFNEREVGKE GGGSKEDGGA AVQLRFLDEN VEKYAPAAAG AEGNKGKRKR PRVKTNEEVE  180
SQRMTHIAVE RNRRKQMNEH LRVLRSLMPG SYVQRGDQAS IIGGAIEFVR ELEQLLQCLE  240
SQKRRRLYGD APPARPMAAG DSSTSPLPPL QQQGAQPPFF PAPNEYEAGI CEETTAGSKS  300
CLADVEVKLL GFDGMIKILS RRRPSQLIKV IAALEDLQLS ILHTNITTIE QTVLYSFNVK  360
ISSETRYTAE DLANSVQQIF SFINSNSI
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1182193RMTHIAVERNRR
2242246KRRRL
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}.
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019180980.10.0PREDICTED: transcription factor FAMA
RefseqXP_019180981.10.0PREDICTED: transcription factor FAMA
SwissprotQ56YJ81e-133FAMA_ARATH; Transcription factor FAMA
TrEMBLA0A1J6JGD41e-168A0A1J6JGD4_NICAT; Transcription factor fama
STRINGXP_009795997.11e-168(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA46572341
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24140.11e-119bHLH 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]