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_03582.1_g00001.1
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: 318aa    MW: 34417.6 Da    PI: 8.5948
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_03582.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox573.3e-18158212256
                              T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              rk+ +++keq  +Lee F+++++++ +++  LAk+l+L +rqV vWFqNrRa+ k
  Rsa1.0_03582.1_g00001.1 158 RKKLRLSKEQALVLEETFKQHSTLNPKQKLALAKQLNLRTRQVEVWFQNRRARTK 212
                              778899***********************************************98 PP
2HD-ZIP_I/II122.91.5e-39158247191
              HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                              +kk+rlskeq+ +LEe+F+++++L+p++K +la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++d+l+een+rL+kev+e
  Rsa1.0_03582.1_g00001.1 158 RKKLRLSKEQALVLEETFKQHSTLNPKQKLALAKQLNLRTRQVEVWFQNRRARTKLKQTEVDCEYLKRCCDSLTEENRRLHKEVSE 243
                              69************************************************************************************ PP

              HD-ZIP_I/II  87 Lreel 91 
                              Lr +l
  Rsa1.0_03582.1_g00001.1 244 LR-AL 247
                              *9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046181.8E-261117IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.605.6E-19138212IPR009057Homeodomain-like
SuperFamilySSF466898.55E-19142215IPR009057Homeodomain-like
PROSITE profilePS5007116.941154214IPR001356Homeobox domain
SMARTSM003893.4E-15156218IPR001356Homeobox domain
PfamPF000461.1E-15158212IPR001356Homeobox domain
CDDcd000861.96E-15158215No hitNo description
PROSITE patternPS000270189212IPR017970Homeobox, conserved site
PfamPF021839.0E-12214248IPR003106Leucine zipper, homeobox-associated
SMARTSM003408.7E-27214257IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 318 aa     Download sequence    Send to blast
MGESEDGLGL SLSLGLSQLK EPSLGLGLNL LPLRTSSSFP HMHNHNNNHL EKKKIHHNSW  60
PHQFHSSERN SDVGSFLRGS NVNRTPSAAV VINLEEDVAG MSSPKSTVST VSGNKRDLAA  120
TRGDGGVDEN DAEKASCSHG GGSGGSDEEE GGNCDGTRKK LRLSKEQALV LEETFKQHST  180
LNPKQKLALA KQLNLRTRQV EVWFQNRRAR TKLKQTEVDC EYLKRCCDSL TEENRRLHKE  240
VSELRALKLS PHLYMHMTPP TTLTMCPSCE RVSASSSSAM AAATPPPSTA SGGGGRIPTV  300
VGQPTPCAAI SLQSRLAH
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1156162TRKKLRL
2206214RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_03582.1_g00001.1
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_018465539.10.0PREDICTED: homeobox-leucine zipper protein ATHB-4-like
SwissprotP929531e-131ATHB4_ARATH; Homeobox-leucine zipper protein ATHB-4
TrEMBLA0A078GQC21e-157A0A078GQC2_BRANA; BnaC04g50010D protein
STRINGBra040335.1-P1e-155(Brassica rapa)
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-95homeobox-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]