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 GSBRNA2T00094779001
Common NameGSBRNA2T00094779001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MYB
Protein Properties Length: 313aa    MW: 35434.3 Da    PI: 9.7496
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00094779001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.42.5e-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++ 
  GSBRNA2T00094779001  83 RGHWRPTEDAKLKELVAQFGPQNWNVIAHHLL-GRSGKSCRLRWFNQ 128
                          899****************************9.***********996 PP
2Myb_DNA-binding51.72e-16136178246
                          SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
      Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                           ++T+eE+ +l+ +++ +G++ W++I+r ++ gRt++ +k++w+ 
  GSBRNA2T00094779001 136 RAFTEEEESRLLAVHQAYGNK-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 profilePS5129415.67178129IPR017930Myb domain
SMARTSM007176.0E-1482131IPR001005SANT/Myb domain
PfamPF002491.1E-1583128IPR001005SANT/Myb domain
SuperFamilySSF466893.41E-2883176IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.5E-2584136IPR009057Homeodomain-like
CDDcd001671.08E-1286127No hitNo description
PROSITE profilePS5129424.749130184IPR017930Myb domain
SMARTSM007173.5E-14134182IPR001005SANT/Myb domain
PfamPF002496.8E-14136177IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.0E-20137183IPR009057Homeodomain-like
CDDcd001672.32E-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: 313 aa     Download sequence    Send to blast
MNPNLLKNNL TGNYTINDSG RFEVRNNFRS PPHSHPNFSL ARKHLHNKSV SVLESGDEHE  60
KERGGNGLKR RGKNGINSKL CSRGHWRPTE DAKLKELVAQ FGPQNWNVIA HHLLGRSGKS  120
CRLRWFNQLD PRINKRAFTE EEESRLLAVH QAYGNKWALI SRLFPGRTDN AVKNHWHVIM  180
SRRTRESQRQ RQMQTPQAPS GNAEIVSSSS SYNHGELFDD DGDDEDASAV STCTTELSLT  240
PPSSTHQARF LNYDSTLVPG KDGQCVQRAE VNGRYSKKMD HQNHHTITVS EERKVEMQSG  300
FYFFDFLGVG AS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C1e-31801841105C-Myb DNA-Binding Domain
1msf_C1e-31801841105C-Myb DNA-Binding Domain
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.46965e-95root| seed
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in developing seeds. {ECO:0000269|PubMed:23911125}.
UniprotTISSUE SPECIFICITY: Mostly expressed in flowers (at protein level) and siliques, and, to a lower extent, in roots, stems and leaves (PubMed:25343985). Expressed in embryos (e.g. heart and torpedo stages) and cotyledons, and, at low levels, in roots and inflorescence (PubMed:23911125). Accumulates specifically in root apical meristem quiescent center (QC) and vascular initial cells (PubMed:16581911, PubMed:24981610). {ECO:0000269|PubMed:16581911, ECO:0000269|PubMed:23911125, ECO:0000269|PubMed:24981610, ECO:0000269|PubMed:25343985}.
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
PlantRegMapGSBRNA2T00094779001
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_013722334.10.0transcription factor MYB56-like
SwissprotQ6R0531e-164MYB56_ARATH; Transcription factor MYB56
TrEMBLA0A078FV170.0A0A078FV17_BRANA; BnaC09g40110D protein
STRINGBo9g159830.10.0(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-132myb domain protein 56
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. 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]
  3. 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]
  4. 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]
  5. 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]