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_009143079.1
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: 288aa    MW: 31624.4 Da    PI: 8.9015
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009143079.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.81.8e-18154208256
                     T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
        Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                     rk+ +++keq  +Lee F+++++++ +++  LAk+l+L +rqV vWFqNrRa+ k
  XP_009143079.1 154 RKKLRLSKEQALVLEETFKEHSTLNPKQKLALAKQLNLRTRQVEVWFQNRRARTK 208
                     788899***********************************************98 PP
2HD-ZIP_I/II1231.5e-39154243191
     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_009143079.1 154 RKKLRLSKEQALVLEETFKEHSTLNPKQKLALAKQLNLRTRQVEVWFQNRRARTKLKQTEVDCEYLKRCCDNLTEENRRLQKEVSGLR-AL 243
                     69***********************************************************************************999.44 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046182.1E-301114IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.603.6E-19135208IPR009057Homeodomain-like
SuperFamilySSF466898.55E-19139211IPR009057Homeodomain-like
PROSITE profilePS5007117.281150210IPR001356Homeobox domain
SMARTSM003893.0E-15152214IPR001356Homeobox domain
CDDcd000869.12E-15154211No hitNo description
PfamPF000466.0E-16154208IPR001356Homeobox domain
PROSITE patternPS000270185208IPR017970Homeobox, conserved site
PfamPF021831.2E-11210244IPR003106Leucine zipper, homeobox-associated
SMARTSM003402.1E-25210253IPR003106Leucine 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: 288 aa     Download sequence    Send to blast
MGERDDGLAL SLSLGFSQPK EPSLRLNLMP STTSSSFPRM QNHKNKHLPK KTHHSSWPHL  60
FQPSERNSNF GSFLRGFDVN RPPSVAVVVD LDEETAGMSS PNSNVSSVSG NKRDLAAAAR  120
GEGDETEGER ASCSRGGGSC GSDDEDGGNG DGSRKKLRLS KEQALVLEET FKEHSTLNPK  180
QKLALAKQLN LRTRQVEVWF QNRRARTKLK QTEVDCEYLK RCCDNLTEEN RRLQKEVSGL  240
RALKLSPNLY MQMTPPTTLT MCPSCERVSA SSSTVAAPPP PPSSSSAH
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1152158SRKKLRL
2202210RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009143079.1
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_009143079.10.0PREDICTED: homeobox-leucine zipper protein ATHB-4-like isoform X2
SwissprotP929531e-134ATHB4_ARATH; Homeobox-leucine zipper protein ATHB-4
TrEMBLA0A397Z7320.0A0A397Z732_BRACM; Uncharacterized protein
STRINGBra004874.1-P1e-179(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G44910.11e-106homeobox-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]