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_00213.1_g00019.1
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: 338aa    MW: 37888.1 Da    PI: 5.379
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00213.1_g00019.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding482.9e-153279148
                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                             +g W+++Ede+l+++    G g+W+ Iar  g+ R++k+c++rw +yl
  Rsa1.0_00213.1_g00019.1 32 KGLWSPDEDEKLIRYMLTNGQGCWSDIARNAGLLRCGKSCRLRWINYL 79
                             678*****************************99************97 PP
2Myb_DNA-binding48.12.6e-1585129147
                              TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
          Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                              rg+++++E++l+ +++  lG++ W+ Ia +++ gRt++++k++w++ 
  Rsa1.0_00213.1_g00019.1  85 RGSFSPQEEDLIFHLHSILGNR-WSQIATRLP-GRTDNEIKNFWNST 129
                              899*******************.*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.602.2E-222582IPR009057Homeodomain-like
PROSITE profilePS5129416.5832779IPR017930Myb domain
SuperFamilySSF466891.41E-2730126IPR009057Homeodomain-like
SMARTSM007171.7E-123181IPR001005SANT/Myb domain
PfamPF002496.5E-143279IPR001005SANT/Myb domain
CDDcd001672.59E-103579No hitNo description
PROSITE profilePS5129424.98480134IPR017930Myb domain
Gene3DG3DSA:1.10.10.604.1E-2583135IPR009057Homeodomain-like
SMARTSM007171.4E-1584132IPR001005SANT/Myb domain
PfamPF002494.3E-1485129IPR001005SANT/Myb domain
CDDcd001676.24E-1187130No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 338 aa     Download sequence    Send to blast
MMMRNPDIAT VKDRNKPNNA CGVNNNKQKL RKGLWSPDED EKLIRYMLTN GQGCWSDIAR  60
NAGLLRCGKS CRLRWINYLR PDLKRGSFSP QEEDLIFHLH SILGNRWSQI ATRLPGRTDN  120
EIKNFWNSTL KKRLKNNNNN TSSGSSPNNS NSNSLEPIDQ HVDMGDNSNP MMDNYHHQDD  180
MMIGGNSMRM DSSSFSFAPV VGGVGLNGLD SLISVPDHNQ YQQHTGNTGT NVNGLGDYGS  240
AIIDPISNRA SVESEWFLPP SENTNIIACA TSNNLNLEAL DPCFSSKYMC HSESFKVGNI  300
MGMENSSWEI ENPKIGDWDL DSLIDNNSSF PFLDFQIE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A8e-28301345108B-MYB
1h8a_C1e-273013425128MYB TRANSFORMING PROTEIN
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as molecular switch in the NAC012/SND1-mediated transcriptional network regulating secondary wall biosynthesis. Is directly activated by NAC012/SND1 and its close homologs, including NAC043/NST1, NAC066/NST2, NAC101/VND6 and NAC030/VND7. Is required for functional expression of a number of secondary wall-associated transcription factors and secondary wall biosynthetic genes involved in cellulose, xylan and lignin synthesis. Functions redundantly with MYB46 in the transcriptional regulatory cascade leading to secondary wall formation in fibers and vessels (PubMed:19808805). Transcription activator that binds to the DNA consensus sequence 5'-ACC[AT]A[AC][TC]-3', designated as the secondary wall MYB-responsive element (SMRE). Regulates directly numerous transcription factors and a number of genes involved in secondary wall biosynthesis that contain SMRE elements in their promoters (PubMed:22197883). {ECO:0000269|PubMed:19808805, ECO:0000269|PubMed:22197883}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00336DAPTransfer from AT3G08500Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00213.1_g00019.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893680.0AC189368.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB047A09, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018489309.10.0PREDICTED: transcription factor MYB46-like
SwissprotQ9C6U10.0MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A0D3CLU80.0A0A0D3CLU8_BRAOL; Uncharacterized protein
TrEMBLA0A3P6FXI10.0A0A3P6FXI1_BRAOL; Uncharacterized protein
STRINGBo5g139830.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70772642
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08500.10.0myb domain protein 83
Publications ? help Back to Top
  1. Vargas L, et al.
    Improving total saccharification yield of Arabidopsis plants by vessel-specific complementation of caffeoyl shikimate esterase (cse) mutants.
    Biotechnol Biofuels, 2016. 9: p. 139
    [PMID:27390589]
  2. Piya S,Kihm C,Rice JH,Baum TJ,Hewezi T
    Cooperative Regulatory Functions of miR858 and MYB83 during Cyst Nematode Parasitism.
    Plant Physiol., 2017. 174(3): p. 1897-1912
    [PMID:28512179]