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_09218.1_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: 276aa    MW: 31019.8 Da    PI: 7.8564
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_09218.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.22.9e-18123177256
                              T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              rk+ +++k+q   Lee F+++++++ +++  LAkkl+Lt rqV vWFqNrRa+ k
  Rsa1.0_09218.1_g00001.1 123 RKKLRLSKDQSAFLEETFKEHNTLNPKQKLALAKKLNLTARQVEVWFQNRRARTK 177
                              788899***********************************************98 PP
2HD-ZIP_I/II121.63.8e-39123212191
              HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                              +kk+rlsk+q+++LEe+F+e+++L+p++K +la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++d+l+een+rL+ke  e
  Rsa1.0_09218.1_g00001.1 123 RKKLRLSKDQSAFLEETFKEHNTLNPKQKLALAKKLNLTARQVEVWFQNRRARTKLKQTEVDCEYLKRCVDKLTEENRRLQKEAME 208
                              69************************************************************************************ PP

              HD-ZIP_I/II  87 Lreel 91 
                              Lr +l
  Rsa1.0_09218.1_g00001.1 209 LR-TL 212
                              *9.44 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046183.5E-21292IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.601.3E-18104180IPR009057Homeodomain-like
SuperFamilySSF466899.41E-19106180IPR009057Homeodomain-like
PROSITE profilePS5007117.313119179IPR001356Homeobox domain
SMARTSM003896.9E-16121183IPR001356Homeobox domain
CDDcd000869.78E-16123180No hitNo description
PfamPF000469.6E-16123177IPR001356Homeobox domain
PROSITE patternPS000270154177IPR017970Homeobox, conserved site
SMARTSM003401.9E-23179222IPR003106Leucine zipper, homeobox-associated
PfamPF021831.1E-8179212IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009641Biological Processshade avoidance
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009826Biological Processunidimensional cell growth
GO:0045892Biological Processnegative regulation 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: 276 aa     Download sequence    Send to blast
MMMRKEDLGL SLSLGLSQDH TPLQLTQNPN SSISNNLPRF PWNQTFASSS DLGKIDVNSI  60
PTTVDCEEEA GVSSPNSTIS STISGGKRSE REGISDHHDD ITPDRGYSRG TSDEEEDGGE  120
TSRKKLRLSK DQSAFLEETF KEHNTLNPKQ KLALAKKLNL TARQVEVWFQ NRRARTKLKQ  180
TEVDCEYLKR CVDKLTEENR RLQKEAMELR TLKLSPQFYG QMTPPTTLIM CPSCERVAGP  240
SSNHQHNQRP VPINPWVACA GQVAHGLNFE ALRPRS
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1121127SRKKLRL
2171179RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that plays a role in auxin-mediated morphogenesis. Negatively regulates lateral root elongation. {ECO:0000269|PubMed:12492842}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00550DAPTransfer from AT5G47370Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_09218.1_g00001.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By indole-3-acetic acid (IAA). {ECO:0000269|PubMed:12492842}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4284500.0AF428450.1 Arabidopsis thaliana AT5g47370/MQL5_23 mRNA, complete cds.
GenBankAJ4311830.0AJ431183.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein HAT2 (hat2 gene).
GenBankATU093350.0U09335.1 Arabidopsis thaliana clone HAT2 homeobox protein mRNA, partial cds.
GenBankAY0523240.0AY052324.1 Arabidopsis thaliana AT5g47370/MQL5_23 mRNA, complete cds.
GenBankAY0619040.0AY061904.1 Arabidopsis thaliana AT5g47370/MQL5_23 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018461133.10.0PREDICTED: homeobox-leucine zipper protein HAT2
SwissprotP466010.0HAT2_ARATH; Homeobox-leucine zipper protein HAT2
TrEMBLM4E8420.0M4E842_BRARP; Uncharacterized protein
STRINGBra024948.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15632690
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G47370.11e-138Homeobox-leucine zipper protein 4 (HB-4) / HD-ZIP protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Zou LJ, et al.
    Role of Transcription Factor HAT1 in Modulating Arabidopsis thaliana Response to Cucumber mosaic virus.
    Plant Cell Physiol., 2016. 57(9): p. 1879-89
    [PMID:27328697]