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 Cc03_g07740
Common NameGSCOC_T00026638001
Organism
Coffea canephora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
Family bHLH
Protein Properties Length: 411aa    MW: 46237 Da    PI: 5.2165
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc03_g07740genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH382.9e-12203254155
                  CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
          HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                  +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e++++L+
  Cc03_g07740 203 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 254
                  79****************************...9*****************9995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.101.4E-13201257IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.94E-13201258No hitNo description
SuperFamilySSF474591.83E-16202267IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.428202253IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.3E-9203254IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.4E-9208259IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048739.12E-4336400No hitNo description
PROSITE profilePS516719.277336410IPR002912ACT 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:0016597Molecular Functionamino acid binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 411 aa     Download sequence    Send to blast
MEKEENYSGS IPGNFTGLDY TLEHHQQNQH QQLMKPQIGE VSGDDGSNQM VDYMLHNTTQ  60
QQPMSSGFCA STSLDKLSFA DVMQFADFGP KLALNQAKTP EEETVLNDSV YFLKFPVLNE  120
KLQDDPDHQA LMFPRPINEE SNSKVGEEGD QRPDQDQARG FGNTSVQLQF LGDNREKSPL  180
TTETKNKRKR PRTIKTSEEV ESQRMTHIAV ERNRRKQMNE HLRVLRSLMP GSYVQRGDQA  240
SIIGGAIEFV RELEQLLQCL ESQKRRRLYG DGPRPIGDSS SSVPIQQPQP PFFPGMPLSS  300
DQMKLVELET GLHEETAESK SCLADVEVKL LGFDALIKIL SRRRPGQLIK TIAALEDLQL  360
NILHTNITTI EQTVLYSFNV KVASEARFTA EDIANSIQQI FSFIHANSSI *
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1203214RMTHIAVERNRR
2263267KRRRL
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027118093.10.0transcription factor FAMA-like isoform X2
SwissprotQ56YJ81e-146FAMA_ARATH; Transcription factor FAMA
TrEMBLA0A068TT280.0A0A068TT28_COFCA; Uncharacterized protein
STRINGPOPTR_0001s32160.10.0(Populus trichocarpa)
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-134bHLH 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]