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 PSME_00035406-RA
Organism
Pseudotsuga menziesii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga
Family bHLH
Protein Properties Length: 454aa    MW: 50237.4 Da    PI: 5.1748
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00035406-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH37.93.3e-12244295155
                       CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
               HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                       +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e++++L+
  PSME_00035406-RA 244 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 295
                       79****************************...9*****************9995 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.101.7E-13242298IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000838.76E-14242299No hitNo description
PROSITE profilePS5088815.428243294IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.36E-16243309IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.5E-9244295IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.4E-9249300IPR011598Myc-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: 454 aa     Download sequence    Send to blast
MNVPTLFPPA CTEYSLDQLQ LGKPPRTTDC IENLDNNSMG SGILDMFNIH HISSGSSVGC  60
STALEKMSFA DVMQFADYGS KLTLSQAMDD QTEATGRSGP ETSFDPVYFL KFPVLAADHQ  120
KPVDHKNLDQ NIHEVQIALA TESDGNYHTA GNSGSEHLDC GNDVPAYENT SNLNHELNLC  180
TDAATNSGMK IGHSCDEQQQ ILSLDTPKLA SFSTSNCTPD QPPQCKPKRK RSRACKNSEE  240
VESQRMTHIA VERNRRKQMN EHLRVLRSLM PGSYVQRGDQ ASIIGGAIEF VRELEQLLQC  300
LESQKRRRLY AEASSSLVSA GARQPQAECL PIQTSYPVFP VQQDFNLYNE PIREDLAENK  360
SPVADIEVKL VGYDAMIKIL SQRRPGQLLK TIAALENLQF SIMHTNITTI EQTVLYSFNV  420
KVGGDCGLSA EDIANSVHQI FNMIHASCMG YIND
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1244255RMTHIAVERNRR
2304308KRRRL
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT1059190.0BT105919.1 Picea glauca clone GQ02830_B17 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020534623.11e-118transcription factor FAMA isoform X2
RefseqXP_020534624.11e-118transcription factor FAMA isoform X2
SwissprotQ56YJ81e-109FAMA_ARATH; Transcription factor FAMA
STRINGPOPTR_0001s32160.11e-115(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24140.11e-100bHLH 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]