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 RrC4410_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 MYB
Protein Properties Length: 273aa    MW: 30979.2 Da    PI: 9.6289
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4410_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding50.26e-1683128147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      rg W + Ed +l+++v+q+G+ +W+ I++++  gR++k+c++rw++ 
       RrC4410_p1  83 RGHWRPTEDAKLKELVAQFGPQNWNVISNHLL-GRSGKSCRLRWFNQ 128
                      899****************************9.***********996 PP
2Myb_DNA-binding52.61e-16135178146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      + ++T+eE+++l+ +++ +G++ W++I+r ++ gRt++ +k++w+ 
       RrC4410_p1 135 KSAFTEEEELRLLAVHRAYGNK-WALISRLFP-GRTDNAVKNHWHV 178
                      578*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.20678129IPR017930Myb domain
SMARTSM007172.5E-1382131IPR001005SANT/Myb domain
SuperFamilySSF466896.36E-2883176IPR009057Homeodomain-like
PfamPF002492.2E-1583128IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.2E-2484136IPR009057Homeodomain-like
CDDcd001672.91E-1286127No hitNo description
PROSITE profilePS5129424.747130184IPR017930Myb domain
SMARTSM007174.6E-14134182IPR001005SANT/Myb domain
PfamPF002493.0E-14135177IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.608.7E-20137183IPR009057Homeodomain-like
CDDcd001671.01E-10137177No 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: 273 aa     Download sequence    Send to blast
MNQNLLKKNL TGNYTINDSR RFQERNNFRS LPNSDTNFSL ARNYPHNKSV SGLESGDEHG  60
KERGGNGLKR RGKNGINSKL CSRGHWRPTE DAKLKELVAQ FGPQNWNVIS NHLLGRSGKS  120
CRLRWFNQLD PRINKSAFTE EEELRLLAVH RAYGNKWALI SRLFPGRTDN AVKNHWHVIM  180
ARRTRESQRQ RHQPPEAPSG NTEMAVSSSY NHGDEFFGTV ANGTFVNEED DDDDGSAVST  240
CTTELSLTPP SSTHQPRFFN YDYTLASGNN LCI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A5e-32831847108B-MYB
1mse_C4e-32801841105C-Myb DNA-Binding Domain
1msf_C4e-32801841105C-Myb DNA-Binding Domain
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}.
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9667390.0KC966739.1 Brassica napus MYB transcription factor 56 (MYB56.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018443078.11e-162PREDICTED: transcription factor MYB21
SwissprotQ6R0531e-138MYB56_ARATH; Transcription factor MYB56
TrEMBLA0A3P6DBA81e-156A0A3P6DBA8_BRAOL; Uncharacterized protein
STRINGBo2g013970.11e-155(Brassica oleracea)
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-116myb 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]