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_13699.1_g00001.1
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 MYB
Protein Properties Length: 313aa    MW: 35236.5 Da    PI: 9.9252
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_13699.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.22.9e-1677122147
                              TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
          Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                              rg W + Ed +l+++v+q+G+ +W++Ia+++  gR++k+c++rw + 
  Rsa1.0_13699.1_g00001.1  77 RGHWRPTEDAKLKELVAQFGPQNWNLIAHHLL-GRSGKSCRLRWCNQ 122
                              899****************************9.***********985 PP
2Myb_DNA-binding52.51.1e-16129173147
                              TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
          Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                              ++++T+eE+ +l+ a++ +G++ W++I++ ++ gRt++ +k++w+ +
  Rsa1.0_13699.1_g00001.1 129 KNAFTEEEESRLLTAHRAYGNK-WSLISHLFP-GRTDNAVKNHWHVV 173
                              679*******************.*********.***********976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.00172123IPR017930Myb domain
SMARTSM007172.9E-1476125IPR001005SANT/Myb domain
SuperFamilySSF466893.56E-2877170IPR009057Homeodomain-like
PfamPF002491.1E-1577122IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.3E-2578130IPR009057Homeodomain-like
CDDcd001673.85E-1380121No hitNo description
PROSITE profilePS5129424.155124178IPR017930Myb domain
SMARTSM007171.1E-14128176IPR001005SANT/Myb domain
PfamPF002491.8E-14129172IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.4E-20131176IPR009057Homeodomain-like
CDDcd001673.24E-11131174No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 313 aa     Download sequence    Send to blast
MNLKLSVKVQ TGNKTIKLSR RFEEANNFGS PPNSHTDFSL ARNHLHNKSY SVLERGENEN  60
GLKRRGNNGM KTKLCSRGHW RPTEDAKLKE LVAQFGPQNW NLIAHHLLGR SGKSCRLRWC  120
NQLDPRINKN AFTEEEESRL LTAHRAYGNK WSLISHLFPG RTDNAVKNHW HVVMARRTRV  180
SQRQQPLHPP SVNAGMTVSS SCRYNNGGFF GRVGEGTLVN EADDDDGSAV STCTTELSLT  240
PPSSTHQPLF LHDDYTLASG KDGQCAQRAE VNGICSKKMD HQNRHTTTVS EREVEMKMKS  300
GFYFFDFLGV GVS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A9e-32771787108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtActs as a cell-specific local repressor of quiescent center (QC) self-renewal by cell divisions in the primary root. Counteracts brassinosteroid (BR)-mediated cell division in the QC cells (PubMed:24981610). Regulates maternally seed size, especially before the heart stage, promoting both endothelial cells expansion and cell number in the outer integument layer of the seed coat (PubMed:23911125). Modulates the expression of genes involved in cell wall metabolism such as cell division and expansion (PubMed:23911125, PubMed:24981610). Negative regulator of flowering via the repression of FT transcription (PubMed:25343985). {ECO:0000269|PubMed:23911125, ECO:0000269|PubMed:24981610, ECO:0000269|PubMed:25343985}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_13699.1_g00001.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Levels follow a circadian cycle with a progressive decrease during the day time (at protein level) (PubMed:25343985). Down-regulated by brassinosteroids (BRs) in a dose- and time-dependent manner. Repressed by BES1. Auto-activation of expression (PubMed:24981610). Targeted to 26S proteasomal degradation by the CULLIN3 (CUL3)-based E3 ligases CRL3(BPMs) (PubMed:25343985). {ECO:0000269|PubMed:24981610, ECO:0000269|PubMed:25343985}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018465738.10.0PREDICTED: transcription factor MYB23-like
SwissprotQ6R0531e-154MYB56_ARATH; Transcription factor MYB56
TrEMBLM4CQD30.0M4CQD3_BRARP; Uncharacterized protein
STRINGBra006422.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM99771836
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G17800.11e-144myb domain protein 56
Publications ? help Back to Top
  1. Chen L,Bernhardt A,Lee J,Hellmann H
    Identification of Arabidopsis MYB56 as a novel substrate for CRL3BPM E3 ligases.
    Mol Plant, 2015.
    [PMID:25343985]
  2. Frigola D,Caño-Delgado AI,Ibañes M
    Methods for Modeling Brassinosteroid-Mediated Signaling in Plant Development.
    Methods Mol. Biol., 2017. 1564: p. 103-120
    [PMID:28124249]
  3. Espinosa-Ruiz A, et al.
    TOPLESS mediates brassinosteroid control of shoot boundaries and root meristem development in Arabidopsis thaliana.
    Development, 2017. 144(9): p. 1619-1628
    [PMID:28320734]
  4. Jeong CY, et al.
    AtMyb56 Regulates Anthocyanin Levels via the Modulation of AtGPT2 Expression in Response to Sucrose in Arabidopsis.
    Mol. Cells, 2018. 41(4): p. 351-361
    [PMID:29487277]