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 Cagra.0239s0043.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family HD-ZIP
Protein Properties Length: 320aa    MW: 35114.3 Da    PI: 9.635
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0239s0043.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox54.71.8e-17162216256
                          T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          rk+ +++keq  +Lee F+ +++++ +++  LAk+l+L  rqV vWFqNrRa+ k
  Cagra.0239s0043.1.p 162 RKKLRLSKEQALVLEETFKVHSTLNPKQKLVLAKQLNLRARQVEVWFQNRRARTK 216
                          788899***********************************************98 PP
2HD-ZIP_I/II121.54.1e-39162251191
          HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 
                          +kk+rlskeq+ +LEe+F+ +++L+p++K  la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++d+l+een+rL+kev+eLr +
  Cagra.0239s0043.1.p 162 RKKLRLSKEQALVLEETFKVHSTLNPKQKLVLAKQLNLRARQVEVWFQNRRARTKLKQTEVDCEYLKRCCDNLTEENRRLQKEVSELR-A 250
                          69*************************************************************************************9.5 PP

          HD-ZIP_I/II  91 l 91 
                          l
  Cagra.0239s0043.1.p 251 L 251
                          5 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046184.1E-321127IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.608.1E-18141216IPR009057Homeodomain-like
SuperFamilySSF466893.25E-18150219IPR009057Homeodomain-like
PROSITE profilePS5007116.811158218IPR001356Homeobox domain
SMARTSM003892.1E-14160222IPR001356Homeobox domain
CDDcd000867.41E-14162219No hitNo description
PfamPF000465.1E-15162216IPR001356Homeobox domain
PROSITE patternPS000270193216IPR017970Homeobox, conserved site
PfamPF021831.6E-11218252IPR003106Leucine zipper, homeobox-associated
SMARTSM003402.9E-26218261IPR003106Leucine 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: 320 aa     Download sequence    Send to blast
MGERDDGLGL SLSLGNSSQL KEPSLRLNLT PFTASTSSSF PPHMHNQINN NSHPQKIHHN  60
SWTHLFQSSG IKRTTAERNS DAGSFLRSFD VNRAPSSSVA VVNLEEEAAV VSSPNSTVSS  120
LSGNKRDLAA ARGGDEHEAE RASCSRGGGS DDEDCGNGDG SRKKLRLSKE QALVLEETFK  180
VHSTLNPKQK LVLAKQLNLR ARQVEVWFQN RRARTKLKQT EVDCEYLKRC CDNLTEENRR  240
LQKEVSELRA LKLSPHLYMH MTPPTTLTMC PSCERVSSTS SANASIAPPP PPATTVVGRP  300
SPQRSTHWTA ISLQQRPGR*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1160166SRKKLRL
2210218RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.0239s0043.1.p
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4412510.0AJ441251.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein ATHB4 (Athb4 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006294614.10.0homeobox-leucine zipper protein ATHB-4 isoform X2
SwissprotP929531e-170ATHB4_ARATH; Homeobox-leucine zipper protein ATHB-4
TrEMBLR0FX190.0R0FX19_9BRAS; Uncharacterized protein
STRINGCagra.0239s0043.1.p0.0(Capsella grandiflora)
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-137homeobox-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]