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 Carubv10009978m
Common NameCARUB_v10009978mg
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 BBR-BPC
Protein Properties Length: 278aa    MW: 30932.2 Da    PI: 10.2698
Description BBR-BPC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10009978mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GAGA_bind356.65.2e-10912771301
        GAGA_bind   1 mdddgsrernkgyyepa.aslkenlglqlmssiaerdaki....rernlalsekkaavaerd....maflqrdkalaernkalverdnkllall 85 
                      mdddg+  rn+gyyepa a++k nlglqlms+i +r++k+    r+ nl ++++++++++++    m++    +++++       +++k++++l
  Carubv10009978m   1 MDDDGF--RNWGYYEPAaATFKGNLGLQLMSTI-DRNTKPflpgRDPNL-MIGPNGSYHHQEppihMSY----NWINQ-------QKDKFFNML 79 
                      99**99..9*******999**************.9**************.************5555555....*****.......899****** PP

        GAGA_bind  86 lvenslasalpvgvqvlsgtksidslqq..lsepqledsavelreeeklealpieeaaeeakekkkkkkrqrakkpkekkakkkkkksekskkk 177
                      +v+++     p++ +vl++t+s+ s+q+  ++++q e+++v+        + ++++ ++++k+k+++k    ++ +k+kk +k+k++++   ++
  Carubv10009978m  80 PVTTA-----PNYGNVLPETSSAPSMQMnlHHHHQSEENPVK-------LEDEVVQPNNNKKRKTNPK---AGSATKAKKPRKPKDENS---NN 155
                      *9997.....9*****************74455777777777.......4455666556665555555...567778888888888332...33 PP

        GAGA_bind 178 vkkesaderskaekksidlvlngvslDestlPvPvCsCtGalrqCYkWGnGGWqSaCCtttiSvyPLPvstkrrgaRiagrKmSqgafkklLek 271
                      ++++   +r+k  kks+d+v+ngvs+D+s+lPvP+C+CtGa++qCY+WG+GGWqSaCCtt+iS++PLP+stkrrgaRi+grKmSqgafkk+Lek
  Carubv10009978m 156 NNTNV--SRVKPAKKSVDMVINGVSMDISGLPVPICTCTGAPQQCYRWGCGGWQSACCTTNISMHPLPMSTKRRGARISGRKMSQGAFKKVLEK 247
                      33333..689************************************************************************************ PP

        GAGA_bind 272 LaaeGydlsnpvDLkdhWAkHGtnkfvtir 301
                      La++G++++np+DLk+hWA+HGtnkfvtir
  Carubv10009978m 248 LASDGFNFGNPIDLKSHWARHGTNKFVTIR 277
                      *****************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012266.6E-1731277IPR010409GAGA-binding transcriptional activator
PfamPF062174.7E-1001277IPR010409GAGA-binding transcriptional activator
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009723Biological Processresponse to ethylene
GO:0050793Biological Processregulation of developmental process
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 278 aa     Download sequence    Send to blast
MDDDGFRNWG YYEPAAATFK GNLGLQLMST IDRNTKPFLP GRDPNLMIGP NGSYHHQEPP  60
IHMSYNWINQ QKDKFFNMLP VTTAPNYGNV LPETSSAPSM QMNLHHHHQS EENPVKLEDE  120
VVQPNNNKKR KTNPKAGSAT KAKKPRKPKD ENSNNNNTNV SRVKPAKKSV DMVINGVSMD  180
ISGLPVPICT CTGAPQQCYR WGCGGWQSAC CTTNISMHPL PMSTKRRGAR ISGRKMSQGA  240
FKKVLEKLAS DGFNFGNPID LKSHWARHGT NKFVTIR*
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes. {ECO:0000269|PubMed:14731261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10009978m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3070440.0DQ307044.1 Capsella rubella GAGA-binding transcriptional activator (BBR/BPC2) gene, complete cds.
GenBankDQ3070450.0DQ307045.1 Capsella rubella GAGA-binding transcriptional activator (BBR/BPC2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006305511.10.0protein BASIC PENTACYSTEINE2
RefseqXP_006305512.10.0protein BASIC PENTACYSTEINE2
SwissprotQ9LDE20.0BPC2_ARATH; Protein BASIC PENTACYSTEINE2
TrEMBLQ2PQR30.0Q2PQR3_9BRAS; GAGA-binding transcriptional activator
STRINGXP_006305511.10.0(Capsella rubella)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G14685.31e-178basic pentacysteine 2
Publications ? help Back to Top
  1. Santi L, et al.
    The GA octodinucleotide repeat binding factor BBR participates in the transcriptional regulation of the homeobox gene Bkn3.
    Plant J., 2003. 34(6): p. 813-26
    [PMID:12795701]
  2. Brand LH,Kirchler T,Hummel S,Chaban C,Wanke D
    DPI-ELISA: a fast and versatile method to specify the binding of plant transcription factors to DNA in vitro.
    Plant Methods, 2010. 6: p. 25
    [PMID:21108821]
  3. Simonini S,Kater MM
    Class I BASIC PENTACYSTEINE factors regulate HOMEOBOX genes involved in meristem size maintenance.
    J. Exp. Bot., 2014. 65(6): p. 1455-65
    [PMID:24482368]