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 AT5G65640.2
Common NamebHLH093
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family bHLH
Protein Properties Length: 290aa    MW: 33056.1 Da    PI: 4.9595
Description beta HLH protein 93
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G65640.2genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH38.81.7e-12180223654
                  HHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
          HLH   6 nerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                   ++ErrRR+r+N++++ Lr+++Pk +      K++  +iL  A++Y+k+L
  AT5G65640.2 180 LMAERRRRKRLNDRLSMLRSIVPKiS------KMDRTSILGDAIDYMKEL 223
                  589*********************66......****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.643174223IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.83E-16177242IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.6E-12180229IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000103.3E-10180223IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.107.9E-17181241IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.16E-5181223No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007275Biological Processmulticellular organism development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 290 aa     Download sequence    Send to blast
MELSTQMNVF EELLVPTKQE TTDNNINNLS FNGGFDHHHH QFFPNGYNID YLCFNNEEED  60
ENTLLYPSSF MDLISQPPPL LLHQPPPLQP LSPPLSSSAT AGATFDYPFL EALQEIIDSS  120
SSSPPLILQN GQEENFNNPM SYPSPLMESD QSKSFSVGYC GGETNKKKSK KLEGQPSKNL  180
MAERRRRKRL NDRLSMLRSI VPKISKMDRT SILGDAIDYM KELLDKINKL QDEEQELGNS  240
NNSHHSKLFG DLKDLNANEP LVRNSPKIVE TRILELIYAA RQNRDCYYLL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A1e-12175252582Transcription factor MYC2
5gnj_B1e-12175252582Transcription factor MYC2
5gnj_E1e-12175252582Transcription factor MYC2
5gnj_F1e-12175252582Transcription factor MYC2
5gnj_G1e-12175252582Transcription factor MYC2
5gnj_I1e-12175252582Transcription factor MYC2
5gnj_M1e-12175252582Transcription factor MYC2
5gnj_N1e-12175252582Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1165187KKKSKKLEGQPSKNLMAERRRRK
2182189ERRRRKRL
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.288970.0floral meristem| flower| inflorescence| leaf
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1865327830.0
Genevisible247151_at0.0
Expression AtlasAT5G65640-
AtGenExpressAT5G65640-
ATTED-IIAT5G65640-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Broadly expressed. {ECO:0000269|PubMed:17088607}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. May be involved in the differentiation of stomatal guard cells. {ECO:0000269|PubMed:17088607}.
Function -- GeneRIF ? help Back to Top
  1. NFL is a key transcription factor necessary for promotion of flowering under non-inductive short day conditions through the gibberellin signaling pathway.[NFL] [NO FLOWERING IN SHORT DAY]
    [PMID: 26758694]
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G65640.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G65640
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2290180.0AK229018.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor, complete cds, clone: RAFL16-31-I19.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001078801.10.0beta HLH protein 93
SwissprotQ9LSL10.0BH093_ARATH; Transcription factor bHLH93
TrEMBLA0A178UDV40.0A0A178UDV4_ARATH; BHLH093
STRINGAT5G65640.10.0(Arabidopsis thaliana)
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Sorensen AM, et al.
    The Arabidopsis ABORTED MICROSPORES (AMS) gene encodes a MYC class transcription factor.
    Plant J., 2003. 33(2): p. 413-23
    [PMID:12535353]
  3. Chinnusamy V, et al.
    ICE1: a regulator of cold-induced transcriptome and freezing tolerance in Arabidopsis.
    Genes Dev., 2003. 17(8): p. 1043-54
    [PMID:12672693]
  4. Heim MA, et al.
    The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity.
    Mol. Biol. Evol., 2003. 20(5): p. 735-47
    [PMID:12679534]
  5. Toledo-Ortiz G,Huq E,Quail PH
    The Arabidopsis basic/helix-loop-helix transcription factor family.
    Plant Cell, 2003. 15(8): p. 1749-70
    [PMID:12897250]
  6. Bailey PC, et al.
    Update on the basic helix-loop-helix transcription factor gene family in Arabidopsis thaliana.
    Plant Cell, 2003. 15(11): p. 2497-502
    [PMID:14600211]
  7. Hoth S, et al.
    Monitoring genome-wide changes in gene expression in response to endogenous cytokinin reveals targets in Arabidopsis thaliana.
    FEBS Lett., 2003. 554(3): p. 373-80
    [PMID:14623097]
  8. Scheible WR, et al.
    Genome-wide reprogramming of primary and secondary metabolism, protein synthesis, cellular growth processes, and the regulatory infrastructure of Arabidopsis in response to nitrogen.
    Plant Physiol., 2004. 136(1): p. 2483-99
    [PMID:15375205]
  9. Nagata T,Yamada H,Du Z,Todoriki S,Kikuchi S
    Microarray analysis of genes that respond to gamma-irradiation in Arabidopsis.
    J. Agric. Food Chem., 2005. 53(4): p. 1022-30
    [PMID:15713015]
  10. Oono Y, et al.
    Monitoring expression profiles of Arabidopsis genes during cold acclimation and deacclimation using DNA microarrays.
    Funct. Integr. Genomics, 2006. 6(3): p. 212-34
    [PMID:16463051]
  11. Ohashi-Ito K,Bergmann DC
    Arabidopsis FAMA controls the final proliferation/differentiation switch during stomatal development.
    Plant Cell, 2006. 18(10): p. 2493-505
    [PMID:17088607]
  12. Kanaoka MM, et al.
    SCREAM/ICE1 and SCREAM2 specify three cell-state transitional steps leading to arabidopsis stomatal differentiation.
    Plant Cell, 2008. 20(7): p. 1775-85
    [PMID:18641265]
  13. 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]
  14. Hanada K, et al.
    Functional compensation of primary and secondary metabolites by duplicate genes in Arabidopsis thaliana.
    Mol. Biol. Evol., 2011. 28(1): p. 377-82
    [PMID:20736450]
  15. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  16. Sharma N, et al.
    NO FLOWERING IN SHORT DAY (NFL) is a bHLH transcription factor that promotes flowering specifically under short-day conditions in Arabidopsis.
    Development, 2016. 143(4): p. 682-90
    [PMID:26758694]
  17. Chen YS, et al.
    Two MYB-related transcription factors play opposite roles in sugar signaling in Arabidopsis.
    Plant Mol. Biol., 2017. 93(3): p. 299-311
    [PMID:27866313]
  18. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]