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 Neem_28893_f_1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family bHLH
Protein Properties Length: 416aa    MW: 47378.7 Da    PI: 5.6505
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_28893_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH382.9e-12217268155
                     CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
             HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                     +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e++++L+
  Neem_28893_f_1 217 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 268
                     79****************************...9*****************9995 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.101.5E-13215271IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000834.54E-12215272No hitNo description
SuperFamilySSF474592.22E-16216281IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.428216267IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.3E-9217268IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.4E-9222273IPR011598Myc-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: 416 aa     Download sequence    Send to blast
MEKEENYSAS FPGLDYSLDH HQHHQDMIVR QRIGETSSDN NHGMIDYMIN NPHQPHQHQQ  60
QISISSSGFC TSNSFDKLSF ADVMQFADFG PKLSLNQTNK LPEEETGIID PVYFLKFPVL  120
NDKLEEDQSL MVSSQPGASN EDQSYKGVEN KERILMEGEM SREDEEIRVS DNINSVQLRF  180
LGGDQDVQNK NNNIVPEGKN KRKRPRAIKT TEEVESQRMT HIAVERNRRK QMNEHLRVLR  240
SLMPGSYVQR GDQASIIGGA IEFVRELEQL LQCLESQKRR RLLGEAAAGV APGGRPIGDP  300
AMAIQPPQQP QLFPPPLPFP NDQMKLMDFE TSLREEMAEN KSCLADVEVK LLGFDAMIKI  360
LSRRRPGQLI KTIAALEDLQ FNILHTNITT IEQTVLYSFN VKVLTFLFII NLKNFS
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1217228RMTHIAVERNRR
2277281KRRRL
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_011045659.10.0PREDICTED: transcription factor FAMA isoform X2
SwissprotQ56YJ81e-132FAMA_ARATH; Transcription factor FAMA
TrEMBLB9GFX70.0B9GFX7_POPTR; Uncharacterized protein
STRINGPOPTR_0001s32160.10.0(Populus trichocarpa)
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-118bHLH 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]