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 Vradi07g12330.1
Organism
Vigna radiata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family HD-ZIP
Protein Properties Length: 330aa    MW: 36425.8 Da    PI: 8.089
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi07g12330.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox58.61e-18168222256
                      T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                      rk+ +++k+q  +Lee F+++++++ +++  LAk+lgL  rqV vWFqNrRa+ k
  Vradi07g12330.1 168 RKKLRLSKDQSAILEESFKEHNTLNPKQKLALAKQLGLLPRQVEVWFQNRRARTK 222
                      788899***********************************************98 PP
2HD-ZIP_I/II127.65.2e-41168257191
      HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                      +kk+rlsk+q+++LEesF+e+++L+p++K +la++Lgl prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+kev+eLr +l
  Vradi07g12330.1 168 RKKLRLSKDQSAILEESFKEHNTLNPKQKLALAKQLGLLPRQVEVWFQNRRARTKLKQTEVDCEVLKRCCENLTEENRRLQKEVQELR-AL 257
                      69*************************************************************************************9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046186.1E-3341142IPR006712HD-ZIP protein, N-terminal
SuperFamilySSF466897.27E-18157225IPR009057Homeodomain-like
PROSITE profilePS5007117.184164224IPR001356Homeobox domain
SMARTSM003891.2E-16166228IPR001356Homeobox domain
PfamPF000465.9E-16168222IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.3E-17168222IPR009057Homeodomain-like
CDDcd000862.34E-16168225No hitNo description
PRINTSPR000313.4E-5195204IPR000047Helix-turn-helix motif
PROSITE patternPS000270199222IPR017970Homeobox, conserved site
PRINTSPR000313.4E-5204220IPR000047Helix-turn-helix motif
CDDcd146860.00567217256No hitNo description
SMARTSM003404.6E-26224267IPR003106Leucine zipper, homeobox-associated
PfamPF021837.6E-12224258IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008283Biological Processcell proliferation
GO:0009641Biological Processshade avoidance
GO:0009733Biological Processresponse to auxin
GO:0009735Biological Processresponse to cytokinin
GO:0009826Biological Processunidimensional cell growth
GO:0010016Biological Processshoot system morphogenesis
GO:0010017Biological Processred or far-red light signaling pathway
GO:0010218Biological Processresponse to far red light
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048364Biological Processroot development
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 330 aa     Download sequence    Send to blast
SSSSSSSSLS YSLSLSTAPQ SHSLLYPTSP PGLNFIKLDM MVQKEDLGLS LSLNFRHNIP  60
NPQHLTLISS SPSASNPFKP SWNDAFASSD RNSDTCRGET RSFLRGIDVN RLPSAVDMEE  120
EAGVSSPNST VSSVSGKRSE REPTGEEHDM NRACSRGVSD EEDGETSRKK LRLSKDQSAI  180
LEESFKEHNT LNPKQKLALA KQLGLLPRQV EVWFQNRRAR TKLKQTEVDC EVLKRCCENL  240
TEENRRLQKE VQELRALKLS PQFYMQMTPP TTLTMCPSCE RVAVPSSAVD AGTRHHPMGQ  300
AQSHSRALGM GPWGSAASIP QRGFDGFHH*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1166172SRKKLRL
2216224RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of cell elongation and specific cell proliferation processes such as lateral root formation and secondary growth of the vascular system. Acts as mediator of the red/far-red light effects on leaf cell expansion in the shading response. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. Negatively regulates its own expression. {ECO:0000269|PubMed:10477292, ECO:0000269|PubMed:11260495, ECO:0000269|PubMed:8449400}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapVradi07g12330.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Rapidly and strongly induced by lowering the ratio of red 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
GenBankAP0150341e-170AP015034.1 Vigna angularis var. angularis DNA, chromosome 1, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014509478.10.0homeobox-leucine zipper protein HAT4
SwissprotQ054661e-105HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBLA0A1S3UTQ00.0A0A1S3UTQ0_VIGRR; homeobox-leucine zipper protein HAT4
STRINGXP_007155694.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF123934105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16780.15e-97homeobox protein 2
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. 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]
  4. Müller-Moulé P, et al.
    YUCCA auxin biosynthetic genes are required for Arabidopsis shade avoidance.
    PeerJ, 2016. 4: p. e2574
    [PMID:27761349]
  5. Ivarson E, et al.
    Effects of Overexpression of WRI1 and Hemoglobin Genes on the Seed Oil Content of Lepidium campestre.
    Front Plant Sci, 2016. 7: p. 2032
    [PMID:28119714]
  6. Kasulin L, et al.
    A single haplotype hyposensitive to light and requiring strong vernalization dominates Arabidopsis thaliana populations in Patagonia, Argentina.
    Mol. Ecol., 2017. 26(13): p. 3389-3404
    [PMID:28316114]
  7. Singh M,Gupta A,Singh D,Khurana JP,Laxmi A
    Arabidopsis RSS1 Mediates Cross-Talk Between Glucose and Light Signaling During Hypocotyl Elongation Growth.
    Sci Rep, 2017. 7(1): p. 16101
    [PMID:29170398]