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 AT5G48560.1
Common NameBHLH78, CIB2, EN86, K15N18.2
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: 498aa    MW: 54877.8 Da    PI: 6.3054
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G48560.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH261.6e-08311358455
                  HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
          HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                  +h+ +Er RR++i +++  L++l+P +    +k   Ka +L + ++Y++sLq
  AT5G48560.1 311 SHSLAERVRREKIGERMKLLQDLVPGC----NKVTGKALMLDEIINYVQSLQ 358
                  8*************************9....677*****************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000834.37E-9305362No hitNo description
SuperFamilySSF474593.14E-16305370IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.106.4E-16307372IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.37307357IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.1E-5311358IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003536.7E-10313363IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009637Biological Processresponse to blue light
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
GO:0046983Molecular Functionprotein dimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0009005anatomyroot
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
PO:0007095developmental stageLP.08 eight 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: 498 aa     Download sequence    Send to blast
MDNELFMNTE FPPPPEMATH FEHQQSSSSA MMLNWALMDP NPHQDSSFLW EKSTEQQQQQ  60
SIFDSALSSL VSSPTPSNSN FSGGGGDGFL IRELIGKLGN IGNNNNNSGE IYGTPMSRSA  120
SCYATPMSSP PPPTNSNSQM MMNRTTPLTE FSADPGFAER AARFSCFGSR SFNGRTNTNL  180
PINNGNNMVN NSGKLTRVSS TPALKALVSP EVTPGGEFSR KRKSVPKGKS KENPISTASP  240
SPSFSKTAEK NGGKGGSKSS EEKGGKRRRE EEDDEEEEGE GEGNKSNNTK PPEPPKDYIH  300
VRARRGQATD SHSLAERVRR EKIGERMKLL QDLVPGCNKV TGKALMLDEI INYVQSLQRQ  360
VEFLSMKLSS VNDTRLDFNV DALVSKDVMI PSSNNRLHEE GLQSKSSSHH HQQQLNIYNN  420
NSQLLPNISS NNMMLQSPMN SLETSTLARS FTHLPTLTQF TDSISQYQMF SEEDLQSIVG  480
MGVAENPNNE SQHMKIEL
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1218223SRKRKS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.437690.0root| silique
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO306954860.0
Genevisible248708_at0.0
Expression AtlasAT5G48560-
AtGenExpressAT5G48560-
ATTED-IIAT5G48560-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed constitutively in roots, leaves, stems, and flowers. {ECO:0000269|PubMed:12679534}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds DNA to G box 5'-CACGTG-3' and to E-box 5'-CANNTG-3' (By similarity). Binds to chromatin DNA of the FT gene and promotes its expression, and thus triggers flowering in response to blue light (PubMed:24130508). {ECO:0000250|UniProtKB:Q8GY61, ECO:0000269|PubMed:24130508}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00036PBM25215497Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G48560.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Interaction ? help Back to Top
Source Intact With
IntActSearch Q9FJL4
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G48560
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0029450.0BT002945.1 Arabidopsis thaliana clone RAFL14-96-A17 (R20245) unknown protein (At5g48560) mRNA, complete cds.
GenBankBT0056370.0BT005637.1 Arabidopsis thaliana clone U20245 unknown protein (At5g48560) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_199667.10.0basic helix-loop-helix (bHLH) DNA-binding superfamily protein
SwissprotQ9FJL40.0BH078_ARATH; Transcription factor bHLH78
TrEMBLA0A178UME90.0A0A178UME9_ARATH; Uncharacterized protein
STRINGAT5G48560.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM23322775
Representative plantOGRP5816313
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. 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]
  3. 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]
  4. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  5. 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]
  6. Nakabayashi K,Okamoto M,Koshiba T,Kamiya Y,Nambara E
    Genome-wide profiling of stored mRNA in Arabidopsis thaliana seed germination: epigenetic and genetic regulation of transcription in seed.
    Plant J., 2005. 41(5): p. 697-709
    [PMID:15703057]
  7. Gong W, et al.
    The development of protein microarrays and their applications in DNA-protein and protein-protein interaction analyses of Arabidopsis transcription factors.
    Mol Plant, 2008. 1(1): p. 27-41
    [PMID:19802365]
  8. 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]
  9. Oikawa A, et al.
    An integrative approach to the identification of Arabidopsis and rice genes involved in xylan and secondary wall development.
    PLoS ONE, 2010. 5(11): p. e15481
    [PMID:21124849]
  10. Arabidopsis Interactome Mapping Consortium
    Evidence for network evolution in an Arabidopsis interactome map.
    Science, 2011. 333(6042): p. 601-7
    [PMID:21798944]
  11. Liu Y,Li X,Li K,Liu H,Lin C
    Multiple bHLH proteins form heterodimers to mediate CRY2-dependent regulation of flowering-time in Arabidopsis.
    PLoS Genet., 2013. 9(10): p. e1003861
    [PMID:24130508]