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 RrC2237_p4
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: 230aa    MW: 26339.6 Da    PI: 7.6581
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2237_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.62.1e-1878130456
                 -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
    Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                 + ++t+ ql  Le+ F+++ +++ +++ +L+++lgL+ rq+ vWFqNrRa++k
  RrC2237_p4  78 KKRLTSGQLASLERSFQEEIKLDSDRKLKLSRELGLQPRQIAVWFQNRRARWK 130
                 45699***********************************************9 PP
2HD-ZIP_I/II115.23.8e-3777167292
  HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 
                  kk+rl++ q+++LE+sF+ee kL+++rK +l+reLglqprq+avWFqnrRAR+k+kqlE+ y++L+++yd +++e+++L++ev++Lr+ l+
   RrC2237_p4  77 KKKRLTSGQLASLERSFQEEIKLDSDRKLKLSRELGLQPRQIAVWFQNRRARWKAKQLEQLYDSLRQEYDVVSREKQMLHEEVRKLRALLR 167
                  9**************************************************************************************8775 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.99E-1864134IPR009057Homeodomain-like
PROSITE profilePS5007116.64972132IPR001356Homeobox domain
SMARTSM003893.0E-1674136IPR001356Homeobox domain
CDDcd000861.03E-1477133No hitNo description
PfamPF000465.4E-1678130IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.606.4E-1979139IPR009057Homeodomain-like
PRINTSPR000315.6E-5103112IPR000047Helix-turn-helix motif
PROSITE patternPS000270107130IPR017970Homeobox, conserved site
PRINTSPR000315.6E-5112128IPR000047Helix-turn-helix motif
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009965Biological Processleaf morphogenesis
GO:0010434Biological Processbract formation
GO:0010582Biological Processfloral meristem determinacy
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 230 aa     Download sequence    Send to blast
MEWTTTRNVE DVRIAFMTPP WPESSSFNSV HSSSYDPYAG SSYAPADTQL GPVTSVPESE  60
KIISAYQFSS NNNEMIKKKR LTSGQLASLE RSFQEEIKLD SDRKLKLSRE LGLQPRQIAV  120
WFQNRRARWK AKQLEQLYDS LRQEYDVVSR EKQMLHEEVR KLRALLRDHG LIKKQIPGGE  180
NTTEIPSVVI AHPGAENLNN NQISGENQIY GVDQYNNPML IVSSCWPPFP
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1124132RRARWKAKQ
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00486DAPTransfer from AT5G03790Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF9395901e-107KF939590.1 Cardamine hirsuta LMI1 (LMI1) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018444845.11e-171PREDICTED: putative homeobox-leucine zipper protein ATHB-51
SwissprotQ9LZR01e-137ATB51_ARATH; Putative homeobox-leucine zipper protein ATHB-51
TrEMBLA0A0D3EI301e-143A0A0D3EI30_BRAOL; Uncharacterized protein
STRINGBo9g181720.11e-143(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM16602888
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03790.11e-131homeobox 51
Publications ? help Back to Top
  1. Andres RJ, et al.
    Modifications to a LATE MERISTEM IDENTITY1 gene are responsible for the major leaf shapes of Upland cotton (Gossypium hirsutum L.).
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(1): p. E57-E66
    [PMID:27999177]
  2. Vuolo F, et al.
    LMI1 homeodomain protein regulates organ proportions by spatial modulation of endoreduplication.
    Genes Dev., 2018. 32(21-22): p. 1361-1366
    [PMID:30366902]