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 Csa13g020620.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family MYB
Protein Properties Length: 458aa    MW: 51821.1 Da    PI: 7.6626
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa13g020620.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.52.2e-1694139147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      rg W + Ed +l+++v+q+G+ +W++Ia+++  gR++k+c++rw++ 
   Csa13g020620.1  94 RGHWRPTEDAKLKELVAQFGPQNWNLIAHHLL-GRSGKSCRLRWFNQ 139
                      899****************************9.***********996 PP
2Myb_DNA-binding491.4e-15147189246
                      SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                       ++T+eE+ +l+ a++ +G++ W+ I+r ++ gRt++ +k++w+ 
   Csa13g020620.1 147 RAFTEEEECRLLAAHQAYGNK-WAMISRLFP-GRTDNAVKNHWHV 189
                      689******************.*********.***********96 PP
3Myb_DNA-binding36.31.3e-11276311946
                      HHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   9 dellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      d  l+ a++ +G++ W+ I+r ++ gRt++ +k++w+ 
   Csa13g020620.1 276 DNTLASAHQAYGNK-WAMISRLFP-GRTDNAVKNHWHV 311
                      56899*********.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.75189140IPR017930Myb domain
SMARTSM007173.4E-1493142IPR001005SANT/Myb domain
SuperFamilySSF466895.74E-2894187IPR009057Homeodomain-like
PfamPF002491.1E-1594139IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.5E-2595147IPR009057Homeodomain-like
CDDcd001671.14E-1297138No hitNo description
PROSITE profilePS5129423.807141195IPR017930Myb domain
SMARTSM007178.7E-14145193IPR001005SANT/Myb domain
PfamPF002492.7E-12147188IPR001005SANT/Myb domain
CDDcd001672.44E-10148188No hitNo description
Gene3DG3DSA:1.10.10.601.5E-19148193IPR009057Homeodomain-like
SMARTSM007170.0052271315IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.8E-12276311IPR009057Homeodomain-like
CDDcd001673.53E-6276310No hitNo description
SuperFamilySSF466893.51E-10276318IPR009057Homeodomain-like
PROSITE profilePS5129410.617276317IPR017930Myb domain
PfamPF002491.1E-8276310IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 458 aa     Download sequence    Send to blast
MNPNLLEKDL RGNEPINGSR RFEDANNFGS LPNSHTTASR KTSLTNLSLS RNHPHNKSAS  60
ALEPEDEHEK EKGENAKSLR MRGKNGINTK LCSRGHWRPT EDAKLKELVA QFGPQNWNLI  120
AHHLLGRSGK SCRLRWFNQL DPRINKRAFT EEEECRLLAA HQAYGNKWAM ISRLFPGRTD  180
NAVKNHWHVI MARRTRESQR QRQQPPQAPS RDAERTVSSS CRYNHEEFFG NVANGSFVNE  240
EDDEDDDDGS AVSTCTTELS LTPPSSAYQP RFLNYDNTLA SAHQAYGNKW AMISRLFPGR  300
TDNAVKNHWH VIMARRTRES QRQRQQPPPT PSRDAEMAVS SSCRYNHEEF FGNVANGSFV  360
NEEDDEDDDD GSAVSTCTTE LSLTPPSSAY QPRFLNYDNT LASGKDGQCV QRAEVNGIYG  420
KKMDHQNHHT ISVSERKVEM KMKSGFYFFD FLGVGAS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-30941947107B-MYB
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
PlantRegMapCsa13g020620.1
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
GenBankAK1761930.0AK176193.1 Arabidopsis thaliana mRNA for MYB56 R2R3-MYB factor family member, complete cds, clone: RAFL23-05-P12.
GenBankAK1762770.0AK176277.1 Arabidopsis thaliana mRNA for MYB56 R2R3-MYB factor family member, complete cds, clone: RAFL23-20-A13.
GenBankAY5196270.0AY519627.1 Arabidopsis thaliana MYB transcription factor (At5g17800) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010492746.10.0PREDICTED: transcription repressor MYB6-like
SwissprotQ6R0531e-159MYB56_ARATH; Transcription factor MYB56
TrEMBLD7LXM81e-161D7LXM8_ARALL; AtMYB56
STRINGXP_010492746.10.0(Camelina sativa)
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-138myb 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]