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 Carubv10023652m
Common NameCARUB_v10023652mg
Organism
Capsella rubella
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: 321aa    MW: 35203.4 Da    PI: 9.635
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10023652mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox54.71.8e-17163217256
                      T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                      rk+ +++keq  +Lee F+ +++++ +++  LAk+l+L  rqV vWFqNrRa+ k
  Carubv10023652m 163 RKKLRLSKEQALVLEETFKVHSTLNPKQKLVLAKQLNLRARQVEVWFQNRRARTK 217
                      788899***********************************************98 PP
2HD-ZIP_I/II121.54.1e-39163252191
      HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                      +kk+rlskeq+ +LEe+F+ +++L+p++K  la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++d+l+een+rL+kev+eLr +l
  Carubv10023652m 163 RKKLRLSKEQALVLEETFKVHSTLNPKQKLVLAKQLNLRARQVEVWFQNRRARTKLKQTEVDCEYLKRCCDNLTEENRRLQKEVSELR-AL 252
                      69*************************************************************************************9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046183.7E-321128IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.608.1E-18142217IPR009057Homeodomain-like
SuperFamilySSF466893.29E-18151220IPR009057Homeodomain-like
PROSITE profilePS5007116.811159219IPR001356Homeobox domain
SMARTSM003892.1E-14161223IPR001356Homeobox domain
CDDcd000866.05E-14163220No hitNo description
PfamPF000465.1E-15163217IPR001356Homeobox domain
PROSITE patternPS000270194217IPR017970Homeobox, conserved site
PfamPF021831.7E-11219253IPR003106Leucine zipper, homeobox-associated
SMARTSM003402.9E-26219262IPR003106Leucine 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: 321 aa     Download sequence    Send to blast
MGERDDGLGL SLSLGNSSQL KEPSLRLNLT PFTASTSSSF PPHMHNQIIN NNSHPQKIHH  60
NSWTHLFQSS GIKRTTAERN SDAGSFLRSF DVNRAPSSSV AVVNLEEEAA VVSSPNSTVS  120
SLSGNKRDLA AARGGDEHEA ERASCSRGGG SDDEDCGNGD GSRKKLRLSK EQALVLEETF  180
KVHSTLNPKQ KLVLAKQLNL RARQVEVWFQ NRRARTKLKQ TEVDCEYLKR CCDNLTEENR  240
RLQKEVSELR ALKLSPHLYM HMTPPTTLTM CPSCERVSST SSANASIAPP PPPATSVVGR  300
PSPQRSTHWT AISLQQRSGR *
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1161167SRKKLRL
2211219RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10023652m
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-171ATHB4_ARATH; Homeobox-leucine zipper protein ATHB-4
TrEMBLR0FX190.0R0FX19_9BRAS; Uncharacterized protein
STRINGXP_006294614.10.0(Capsella rubella)
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]