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 Rsa1.0_03418.1_g00005.1
Organism
Raphanus sativus
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 HD-ZIP
Protein Properties Length: 325aa    MW: 34811.7 Da    PI: 8.3923
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_03418.1_g00005.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox581.6e-18157211256
                              T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              rk+ +++keq  +Lee F+++++++ +++  LAk+l+L +rqV vWFqNrRa+ k
  Rsa1.0_03418.1_g00005.1 157 RKKLRLSKEQALVLEETFKEHSTLNPKQKIALAKQLNLRTRQVEVWFQNRRARTK 211
                              778899***********************************************98 PP
2HD-ZIP_I/II1231.5e-39157245190
              HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                              +kk+rlskeq+ +LEe+F+e+++L+p++K +la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++d+l+een+rL+kev+ 
  Rsa1.0_03418.1_g00005.1 157 RKKLRLSKEQALVLEETFKEHSTLNPKQKIALAKQLNLRTRQVEVWFQNRRARTKLKQTEVDCEYLKRCCDNLTEENRRLQKEVTG 242
                              69***********************************************************************************9 PP

              HD-ZIP_I/II  87 Lree 90 
                              Lr +
  Rsa1.0_03418.1_g00005.1 243 LR-A 245
                              99.4 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046181.4E-311115IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.601.3E-19137211IPR009057Homeodomain-like
SuperFamilySSF466898.55E-19142214IPR009057Homeodomain-like
PROSITE profilePS5007117.329153213IPR001356Homeobox domain
SMARTSM003899.7E-16155217IPR001356Homeobox domain
PfamPF000466.2E-16157211IPR001356Homeobox domain
CDDcd000864.62E-15157214No hitNo description
PROSITE patternPS000270188211IPR017970Homeobox, conserved site
PfamPF021831.8E-11213247IPR003106Leucine zipper, homeobox-associated
SMARTSM003402.6E-25213256IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009641Biological Processshade avoidance
GO:0009725Biological Processresponse to hormone
GO:0010218Biological Processresponse to far red light
GO:0005634Cellular Componentnucleus
GO:0009506Cellular Componentplasmodesma
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 325 aa     Download sequence    Send to blast
MGERDDGLGL SLSLGFNQPK EPSLRLNLMP LTTSSLFPHM QNHNNNDLQK KTHHNSWPHL  60
FASSAAERNS DSGNFLRGFN VNRSPAAAVV DSEEEAVGVS SPNSTVSSVS GNKRDLVAAA  120
GGGGEGDETE VERASCSHGG GSGGSEDEDG GNNDGTRKKL RLSKEQALVL EETFKEHSTL  180
NPKQKIALAK QLNLRTRQVE VWFQNRRART KLKQTEVDCE YLKRCCDNLT EENRRLQKEV  240
TGLRALKLSP NLYMHMTPPT TLTMCPSCER VSASSSAVAA SSPPSSSSPA ASGGGGGGGI  300
PTVGRPSPQR PTPWGAISLQ SRLAH
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1155161TRKKLRL
2205213RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_03418.1_g00005.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By transition from light to far-red light. {ECO:0000269|PubMed:8106086}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018435084.10.0PREDICTED: homeobox-leucine zipper protein ATHB-4
SwissprotP929531e-147ATHB4_ARATH; Homeobox-leucine zipper protein ATHB-4
TrEMBLD7LBT71e-157D7LBT7_ARALL; Uncharacterized protein
STRINGXP_010506430.11e-163(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM25772772
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G44910.11e-114homeobox-leucine zipper protein 4
Publications ? help Back to Top
  1. Carabelli M,Turchi L,Ruzza V,Morelli G,Ruberti I
    Homeodomain-Leucine Zipper II family of transcription factors to the limelight: central regulators of plant development.
    Plant Signal Behav, 2014.
    [PMID:23838958]
  2. Francisco M, et al.
    Genome Wide Association Mapping in Arabidopsis thaliana Identifies Novel Genes Involved in Linking Allyl Glucosinolate to Altered Biomass and Defense.
    Front Plant Sci, 2016. 7: p. 1010
    [PMID:27462337]
  3. Gallemí M, et al.
    A non-DNA-binding activity for the ATHB4 transcription factor in the control of vegetation proximity.
    New Phytol., 2017. 216(3): p. 798-813
    [PMID:28805249]