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 Rsa1.0_05557.1_g00003.1
Organism
Raphanus sativus
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: 26490 Da    PI: 8.7106
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_05557.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox597.9e-1978130456
                              -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              + ++t+ ql  Le+ F+ + +++ +++ +L+++lgL  rq+ vWFqNrRa++k
  Rsa1.0_05557.1_g00003.1  78 KKRLTSGQLASLEQSFQGEVKLDSDRKLKLSRELGLHPRQIAVWFQNRRARWK 130
                              45699***********************************************9 PP
2HD-ZIP_I/II113.21.6e-3677167292
              HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeL 87 
                              kk+rl++ q+++LE+sF+ e kL+++rK +l+reLgl+prq+avWFqnrRAR+k+kq E+ y++L+++yd +++e+++L++ev+eL
  Rsa1.0_05557.1_g00003.1  77 KKKRLTSGQLASLEQSFQGEVKLDSDRKLKLSRELGLHPRQIAVWFQNRRARWKAKQFEQLYDSLRQEYDIVSREKQMLHEEVKEL 162
                              9************************************************************************************* PP

              HD-ZIP_I/II  88 reelk 92 
                              r+ l+
  Rsa1.0_05557.1_g00003.1 163 RAVLR 167
                              *8776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.2E-1764133IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.3E-1870135IPR009057Homeodomain-like
PROSITE profilePS5007116.21272132IPR001356Homeobox domain
SMARTSM003892.6E-1674136IPR001356Homeobox domain
CDDcd000866.98E-1477133No hitNo description
PfamPF000462.5E-1678130IPR001356Homeobox domain
PRINTSPR000318.6E-5103112IPR000047Helix-turn-helix motif
PROSITE patternPS000270107130IPR017970Homeobox, conserved site
PRINTSPR000318.6E-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
MEWSMTSNVE NVRVSFMPSS WPESSSFNSL HSFNCDPYAG NSYTHTDTQT GPVISVPESE  60
KIINACRFPS NKKEMIKKKR LTSGQLASLE QSFQGEVKLD SDRKLKLSRE LGLHPRQIAV  120
WFQNRRARWK AKQFEQLYDS LRQEYDIVSR EKQMLHEEVK ELRAVLRDQR LIKKQISGGE  180
DTTEIPSVVI AQQRMENLNS NQISGGNKIY CIDQYNNPMV VASSCWPPCP
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_05557.1_g00003.1
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-109KF939590.1 Cardamine hirsuta LMI1 (LMI1) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018458413.11e-165PREDICTED: putative homeobox-leucine zipper protein ATHB-51 isoform X2
RefseqXP_018458415.11e-165PREDICTED: putative homeobox-leucine zipper protein ATHB-51 isoform X2
SwissprotQ9LZR01e-136ATB51_ARATH; Putative homeobox-leucine zipper protein ATHB-51
TrEMBLA0A0D3AHN81e-144A0A0D3AHN8_BRAOL; Uncharacterized protein
STRINGBo2g005230.11e-145(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-125homeobox 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]