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_02173.1_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: 327aa    MW: 37312.3 Da    PI: 9.1802
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02173.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.32.7e-1683128147
                              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_02173.1_g00001.1  83 RGHWRPTEDAKLKELVAQFGPQNWNVIAHHLL-GRSGKSCRLRWFNQ 128
                              899****************************9.***********996 PP
2Myb_DNA-binding51.32.8e-16136178246
                              SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
          Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                               ++T+eE+ +l+ +++ +G++ W++I+r ++ gRt++ +k++w+ 
  Rsa1.0_02173.1_g00001.1 136 RAFTEEEESRLLAVHRAYGNK-WALISRLFP-GRTDNAVKNHWHV 178
                              689******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.76578129IPR017930Myb domain
SMARTSM007176.0E-1482131IPR001005SANT/Myb domain
SuperFamilySSF466898.24E-2883176IPR009057Homeodomain-like
PfamPF002491.2E-1583128IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.7E-2584136IPR009057Homeodomain-like
CDDcd001671.54E-1286127No hitNo description
PROSITE profilePS5129425.153130184IPR017930Myb domain
SMARTSM007173.2E-14134182IPR001005SANT/Myb domain
PfamPF002491.0E-13136177IPR001005SANT/Myb domain
CDDcd001672.32E-10137177No hitNo description
Gene3DG3DSA:1.10.10.605.6E-20137183IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 327 aa     Download sequence    Send to blast
MNPNLLKKNL TGNYTINDSR RFQERNNFRS PPNSHTDFSL ARNHPHDKSV SGLESGDEHE  60
KERGGNGLKR RGKNGINSKI CSRGHWRPTE DAKLKELVAQ FGPQNWNVIA HHLLGRSGKS  120
CRLRWFNQLD PRINKRAFTE EEESRLLAVH RAYGNKWALI SRLFPGRTDN AVKNHWHVIM  180
SRRTRESQRQ RQVQTPQEPS GNAEMTVISS SCRYNHGDEF FGMVANANVF NKEDDDGDDE  240
DASAVSTCTT ELSLTPPSST HQARFLNYDN TLDPGKDGQC VQRAEVNGKY SKKMDHQNHH  300
TITVSEERKV EMQSGFYFFD FLGVGAT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A2e-31831844105MYB PROTO-ONCOGENE PROTEIN
1mse_C2e-31801841105C-Myb DNA-Binding Domain
1msf_C2e-31801841105C-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02173.1_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_018443078.10.0PREDICTED: transcription factor MYB21
SwissprotQ6R0531e-167MYB56_ARATH; Transcription factor MYB56
TrEMBLA0A078HJ250.0A0A078HJ25_BRANA; BnaA10g16980D protein
TrEMBLA0A3P6DEU80.0A0A3P6DEU8_BRACM; Uncharacterized protein
STRINGBra002107.1-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-135myb 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]