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 XP_009126208.1
Organism
Brassica rapa
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: 318aa    MW: 36238.3 Da    PI: 9.736
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009126208.1genomeNCBIView 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-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++ 
   XP_009126208.1  77 RGHWRPTEDTKLKELVAQFGPQNWNVIANHLL-GRSGKSCRLRWFNQ 122
                      899****************************9.***********996 PP
2Myb_DNA-binding521.7e-16130172246
                      SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                       ++T+eE+++l+ +++ +G++ W++I+r ++ gRt++ +k++w+ 
   XP_009126208.1 130 TAFTEEEELRLLAVHRAYGNK-WALISRLFP-GRTDNAVKNHWHV 172
                      689******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.90772123IPR017930Myb domain
SMARTSM007171.6E-1376125IPR001005SANT/Myb domain
SuperFamilySSF466895.62E-2877170IPR009057Homeodomain-like
PfamPF002499.8E-1677122IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.8E-2578130IPR009057Homeodomain-like
CDDcd001675.97E-1280121No hitNo description
PROSITE profilePS5129424.851124178IPR017930Myb domain
SMARTSM007172.6E-14128176IPR001005SANT/Myb domain
PfamPF002494.4E-14129171IPR001005SANT/Myb domain
CDDcd001673.54E-10131171No hitNo description
Gene3DG3DSA:1.10.10.601.3E-19131177IPR009057Homeodomain-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: 318 aa     Download sequence    Send to blast
MNPNLLEKDQ TSNETIHGSR RFKEANNFSS PKSHTNFSLA RNHPLNKTFL KSEDEHEGEN  60
GWKRRGQSRM KAKVCSRGHW RPTEDTKLKE LVAQFGPQNW NVIANHLLGR SGKSCRLRWF  120
NQLDPRINKT AFTEEEELRL LAVHRAYGNK WALISRLFPG RTDNAVKNHW HVIMARRTRK  180
SQRQRHQPPQ APSGNAEMAV SSSYNHGDEF FGTVVNGTFV NEEDDDADND DASAVSTCTT  240
ELSLTPPSST HQLGFFNYDN TLASGKDGQC VQRAEVNGKY SKKLDHQNHH TITVSERKVE  300
VKMKSGHYFF DFLGVGAF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A2e-32771784105MYB PROTO-ONCOGENE PROTEIN
1h88_C7e-327717858159MYB PROTO-ONCOGENE PROTEIN
1h89_C7e-327717858159MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
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
PlantRegMapXP_009126208.1
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 -- 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_009126208.10.0PREDICTED: transcription factor MYB21-like
SwissprotQ6R0531e-163MYB56_ARATH; Transcription factor MYB56
TrEMBLM4E4D40.0M4E4D4_BRARP; Uncharacterized protein
STRINGBra023637.1-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-152myb 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]