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 XP_009143078.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family HD-ZIP
Protein Properties Length: 295aa    MW: 32325.2 Da    PI: 9.1285
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009143078.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.81.9e-18161215256
                     T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     rk+ +++keq  +Lee F+++++++ +++  LAk+l+L +rqV vWFqNrRa+ k
  XP_009143078.1 161 RKKLRLSKEQALVLEETFKEHSTLNPKQKLALAKQLNLRTRQVEVWFQNRRARTK 215
                     788899***********************************************98 PP
2HD-ZIP_I/II122.91.5e-39161250191
     HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                     +kk+rlskeq+ +LEe+F+e+++L+p++K +la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++d+l+een+rL+kev+ Lr +l
  XP_009143078.1 161 RKKLRLSKEQALVLEETFKEHSTLNPKQKLALAKQLNLRTRQVEVWFQNRRARTKLKQTEVDCEYLKRCCDNLTEENRRLQKEVSGLR-AL 250
                     69***********************************************************************************999.44 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046181.9E-311121IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.603.8E-19142215IPR009057Homeodomain-like
SuperFamilySSF466898.98E-19146218IPR009057Homeodomain-like
PROSITE profilePS5007117.281157217IPR001356Homeobox domain
SMARTSM003893.0E-15159221IPR001356Homeobox domain
CDDcd000869.41E-15161218No hitNo description
PfamPF000466.2E-16161215IPR001356Homeobox domain
PROSITE patternPS000270192215IPR017970Homeobox, conserved site
SMARTSM003402.1E-25217260IPR003106Leucine zipper, homeobox-associated
PfamPF021831.3E-11217251IPR003106Leucine 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: 295 aa     Download sequence    Send to blast
MGERDDGLAL SLSLGFSQPK EPSLRLNLMP STTSSSFPRM QNHKNKHLPK KTHHSSWPHL  60
FQPSGTTRIT AERNSNFGSF LRGFDVNRPP SVAVVVDLDE ETAGMSSPNS NVSSVSGNKR  120
DLAAAARGEG DETEGERASC SRGGGSCGSD DEDGGNGDGS RKKLRLSKEQ ALVLEETFKE  180
HSTLNPKQKL ALAKQLNLRT RQVEVWFQNR RARTKLKQTE VDCEYLKRCC DNLTEENRRL  240
QKEVSGLRAL KLSPNLYMQM TPPTTLTMCP SCERVSASSS TVAAPPPPPS SSSAH
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1159165SRKKLRL
2209217RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009143078.1
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_009143078.10.0PREDICTED: homeobox-leucine zipper protein ATHB-4-like isoform X1
SwissprotP929531e-140ATHB4_ARATH; Homeobox-leucine zipper protein ATHB-4
TrEMBLA0A397ZDQ90.0A0A397ZDQ9_BRACM; Uncharacterized protein
TrEMBLM4CKY80.0M4CKY8_BRARP; Uncharacterized protein
STRINGBra004874.1-P0.0(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-112homeobox-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]