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_013618812.1
Organism
Brassica oleracea
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: 322aa    MW: 36468.5 Da    PI: 9.7475
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013618812.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.13e-1680125147
                      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_013618812.1  80 RGHWRPTEDAKLKELVAQFGPQNWNVIANHLL-GRSGKSCRLRWFNQ 125
                      899****************************9.***********996 PP
2Myb_DNA-binding51.62.2e-16133175246
                      SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                        +T+eE+++l+ +++ +G++ W++I+r ++ gRt++ +k++w+ 
   XP_013618812.1 133 TTFTEEEELRLLAVHRAYGNK-WALISRLFP-GRTDNAVKNHWHV 175
                      679******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.33975126IPR017930Myb domain
SMARTSM007171.1E-1379128IPR001005SANT/Myb domain
PfamPF002491.1E-1580125IPR001005SANT/Myb domain
SuperFamilySSF466897.49E-2880173IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.604.5E-2581133IPR009057Homeodomain-like
CDDcd001673.33E-1283124No hitNo description
PROSITE profilePS5129424.701127181IPR017930Myb domain
SMARTSM007172.1E-14131179IPR001005SANT/Myb domain
PfamPF002495.7E-14133174IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.8E-19134180IPR009057Homeodomain-like
CDDcd001672.74E-10134174No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051782Biological Processnegative regulation of cell division
GO:0071367Biological Processcellular response to brassinosteroid stimulus
GO:0005634Cellular Componentnucleus
GO:0001046Molecular Functioncore promoter sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 322 aa     Download sequence    Send to blast
MNPNLLEKDQ TSNETIHGSR RFKEANNFRS SPKSHTNFSL ARNHPLNKTF PVLKSEDEHE  60
SENGWKRRGQ SGIKAKVCSR GHWRPTEDAK LKELVAQFGP QNWNVIANHL LGRSGKSCRL  120
RWFNQLDPRI NKTTFTEEEE LRLLAVHRAY GNKWALISRL FPGRTDNAVK NHWHVIMARR  180
TRESQRQRHQ PPQAPSGNAE MAVSSSYNHG DEFFGTVVNG TFVNDEDDEA GDDDGSAVST  240
CTTELSLTPP SSTHQLRFFN YDSTLAPGKA GGQCVQRAEV NGKYSKKLDH QNHHTITVSE  300
RKVEVKMKSG HYFFDFLGVG AS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A2e-32801814105MYB PROTO-ONCOGENE PROTEIN
1h88_C9e-328018158159MYB PROTO-ONCOGENE PROTEIN
1h89_C9e-328018158159MYB PROTO-ONCOGENE PROTEIN
1mse_C3e-32801814105C-Myb DNA-Binding Domain
1msf_C3e-32801814105C-Myb DNA-Binding Domain
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00516DAPTransfer from AT5G17800Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013618812.1
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
PlantRegMapRetrieveRetrieve
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_013618812.10.0PREDICTED: myb-related protein Myb4-like
SwissprotQ6R0531e-168MYB56_ARATH; Transcription factor MYB56
TrEMBLA0A0D3AJL40.0A0A0D3AJL4_BRAOL; Uncharacterized protein
STRINGBo2g013970.10.0(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-145myb 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]