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 RrC416_p9
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family bHLH
Protein Properties Length: 405aa    MW: 44470.8 Da    PI: 6.743
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC416_p9genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH21.83.3e-07224271455
                HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
        HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                +h+ +Er RR++i +++  L  l+P +    +k   Ka +L + ++Y++sLq
  RrC416_p9 224 SHSLAERVRREKIGERMKLLEGLVPGC----NKVTGKALMLDEIINYVQSLQ 271
                8*************************9....677*****************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000832.49E-7218275No hitNo description
SuperFamilySSF474592.49E-15218284IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088814.462220270IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.107.4E-15220285IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.7E-4224271IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.5E-7226276IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009637Biological Processresponse to blue light
GO:0005634Cellular Componentnucleus
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 405 aa     Download sequence    Send to blast
MAMHFEQPSS SSPMLDWPLM DPNLAQHSSP QDCFMWEKST EQQQQKQSIF DSALSSLVSS  60
PTPSNSNFSG CGGGGDGFVI RELIGKLGNS SATPMSSPPP MINRTTPLTE FSGDPGFAER  120
AARFSCFGSR SFNGRTNQTL PVSNGKIVNS GKLTRVASTP ALNGLVSPMV PAGEFSRKRK  180
STAQEKGGKR RREDEEEEDN TTKAPEPLKD YIHVRARRGQ ATDSHSLAER VRREKIGERM  240
KLLEGLVPGC NKVTGKALML DEIINYVQSL QRQVEFLSMK LSSVNDTRLE FNVDALVSKD  300
VMIPSSSNRL HEAGLQAESL SHHSYNNNSQ LHTNVSSSNM MLQSPVNSLE TSTLASSFTH  360
LPTLAQFTDS VSQYQMFSQE DLLSIVGMGV AHDPNHESQN MKIEL
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1175180SRKRKS
2177191KRKSTAQEKGGKRRR
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
MP00036PBMTransfer from AT5G48560Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4886101e-134AF488610.1 Arabidopsis thaliana clone bHLH078 putative bHLH transcription factor mRNA, complete cds.
GenBankBT0029451e-134BT002945.1 Arabidopsis thaliana clone RAFL14-96-A17 (R20245) unknown protein (At5g48560) mRNA, complete cds.
GenBankBT0056371e-134BT005637.1 Arabidopsis thaliana clone U20245 unknown protein (At5g48560) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013677716.10.0transcription factor bHLH78-like
SwissprotQ9FJL40.0BH078_ARATH; Transcription factor bHLH78
TrEMBLA0A398AG230.0A0A398AG23_BRACM; Uncharacterized protein
STRINGBra020691.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM23322775
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48560.11e-168bHLH 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]