PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5KG506300.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family bHLH
Protein Properties Length: 423aa    MW: 44732.7 Da    PI: 5.1652
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG506300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH41.32.8e-13185236155
                          CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                          +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e+I++L+
  Pavir.5KG506300.1.p 185 QRMTHIAVERNRRRQMNEYLRILRSLMPGS---YVQRGDQASIIGGAIEFIRELE 236
                          79****************************...9******************996 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.102.5E-13183239IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.86E-14183240No hitNo description
SuperFamilySSF474591.11E-16184249IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.847184235IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.1E-10185236IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.0E-9190241IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS516718.566348422IPR002912ACT domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008152Biological Processmetabolic process
GO:0016597Molecular Functionamino acid binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 423 aa     Download sequence    Send to blast
MDKEQGSHHS HLDSFAPLDG AAAGDQPGGG AAEMVDYMLG QAPPHAQPPP QSQVSFDKLS  60
FSDVLQFADF GPKLALNQPA ASAGVGDPGD DEDDDDDGYF FRFQSLPSLP GGHQGQHHAN  120
REGSKATAAD DEGVHDGGGG GVSESTTLVQ QADGGGRAEK GGDQGKSGRR KRPRTVKTSE  180
EVESQRMTHI AVERNRRRQM NEYLRILRSL MPGSYVQRGD QASIIGGAIE FIRELEQLIQ  240
CLESQKRRRL YGGSGDAPRP VVDAAGAGAP TSTQPQHHQP QVPPPAAFFP PSLPFPAASS  300
GGGDCGGAKI LDLEAGGADA AGGLREEVAE NKSCLADIEV RALGADAMIK ILSRRRPGQL  360
IKTIAALEDM QMSILHTNIT TIEQTVLYSF NVKILGVARY SAEDIAGAVH QILSFIDVNY  420
AL*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1185196RMTHIAVERNRR
2245249KRRRL
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
PlantRegMapPavir.5KG506300.1.p
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
GenBankKJ7277501e-137KJ727750.1 Zea mays clone pUT5691 bHLH transcription factor (bHLH22) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025805324.10.0transcription factor FAMA isoform X1
SwissprotQ56YJ81e-111FAMA_ARATH; Transcription factor FAMA
TrEMBLA0A2S3H9I30.0A0A2S3H9I3_9POAL; Uncharacterized protein
TrEMBLA0A2T7E9Q90.0A0A2T7E9Q9_9POAL; Uncharacterized protein
STRINGPavir.J03740.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP95023340
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24140.16e-54bHLH 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]