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 RrC614_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family HD-ZIP
Protein Properties Length: 255aa    MW: 29443.8 Da    PI: 5.4217
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC614_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox56.16.3e-1878131356
                --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
   Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                k+++++ eql++Le+ Fe  ++++ +++ eLA+ lgL+ rq+ +WFqNrRa+ k
  RrC614_p1  78 KKRRLNMEQLKTLEKNFELGNKLDSDRKLELARALGLQPRQIAIWFQNRRARSK 131
                456899**********************************************99 PP
2HD-ZIP_I/II120.87.2e-3977168192
  HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 
                  ekkrrl+ eq+k+LE++Fe  +kL+++rK elar+Lglqprq+a+WFqnrRAR ktkqlE+dy+aLkr++++lk+en+ L++++++L++++ 
    RrC614_p1  77 EKKRRLNMEQLKTLEKNFELGNKLDSDRKLELARALGLQPRQIAIWFQNRRARSKTKQLERDYDALKRQFESLKDENDLLQTQNQKLQAQVI 168
                  69**************************************************************************************9985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.52E-1960135IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.604.1E-1868133IPR009057Homeodomain-like
PROSITE profilePS5007117.273133IPR001356Homeobox domain
SMARTSM003893.7E-1876137IPR001356Homeobox domain
PfamPF000462.5E-1578131IPR001356Homeobox domain
CDDcd000861.15E-1578134No hitNo description
PRINTSPR000314.5E-6104113IPR000047Helix-turn-helix motif
PROSITE patternPS000270108131IPR017970Homeobox, conserved site
PRINTSPR000314.5E-6113129IPR000047Helix-turn-helix motif
CDDcd146860.00658126167No hitNo description
PfamPF021832.2E-15133174IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009739Biological Processresponse to gibberellin
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 255 aa     Download sequence    Send to blast
MSCNNGLAFF PANFSLQNHH LEEEEDHPQY LLPSCTPPQD FHGFLGKRSP MPNVEGFCNL  60
EMNGEEDFSD DGSKMGEKKR RLNMEQLKTL EKNFELGNKL DSDRKLELAR ALGLQPRQIA  120
IWFQNRRARS KTKQLERDYD ALKRQFESLK DENDLLQTQN QKLQAQVIAL KSKEPIETIN  180
LNKEEGSCSN RSENISGDIR PGHPPSSPTA TTMQFFHNSS SEQRMVKEEN SISNMFCGMD  240
DQTGFWPWLD QQHYN
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1125133RRARSKTKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By gibberellic acid (GA3). {ECO:0000269|PubMed:17387478}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893850.0AC189385.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB052E19, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018448114.10.0PREDICTED: homeobox-leucine zipper protein ATHB-23
SwissprotQ8LFD31e-153ATB23_ARATH; Homeobox-leucine zipper protein ATHB-23
TrEMBLA0A397YKC50.0A0A397YKC5_BRACM; Uncharacterized protein
STRINGBra016300.1-P0.0(Brassica rapa)
STRINGBo8g076330.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM26332770
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G26960.11e-155homeobox protein 23
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Kazama D,Kurusu T,Mitsuda N,Ohme-Takagi M,Tada Y
    Involvement of elevated proline accumulation in enhanced osmotic stress tolerance in Arabidopsis conferred by chimeric repressor gene silencing technology.
    Plant Signal Behav, 2014. 9(3): p. e28211
    [PMID:24614501]
  3. Ribone PA,Capella M,Chan RL
    Functional characterization of the homeodomain leucine zipper I transcription factor AtHB13 reveals a crucial role in Arabidopsis development.
    J. Exp. Bot., 2015. 66(19): p. 5929-43
    [PMID:26136262]
  4. Kazama D, et al.
    Identification of Chimeric Repressors that Confer Salt and Osmotic Stress Tolerance in Arabidopsis.
    Plants (Basel), 2013. 2(4): p. 769-85
    [PMID:27137403]