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 GSBRNA2T00004162001
Common NameGSBRNA2T00004162001
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: 344aa    MW: 38639.2 Da    PI: 6.5064
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00004162001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding48.52e-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
  GSBRNA2T00004162001 32 KGLWSPDEDERLIRYMLTNGQGCWSDIARNAGLLRCGKSCRLRWINYL 79
                         678*****************************99************97 PP
2Myb_DNA-binding33.31.1e-1085132147
                          TSSS-HHHHHHHHHHHHHTTTT..-HHHHHHHHTTTS-HHHHHHHHHHH CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGgg..tWktIartmgkgRtlkqcksrwqky 47 
                          rg+++++E++l+++ +  l      W+ Ia +++ gRt++++k++w++ 
  GSBRNA2T00004162001  85 RGAFSPQEEDLIIHFHSILAIIynKWSQIATRLP-GRTDNEIKNFWNST 132
                          89****************9866888*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129423.6212783IPR017930Myb domain
SuperFamilySSF466896.64E-2529129IPR009057Homeodomain-like
SMARTSM007174.1E-123181IPR001005SANT/Myb domain
PfamPF002497.2E-143279IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.608.9E-223386IPR009057Homeodomain-like
CDDcd001677.73E-103579No hitNo description
PROSITE profilePS5129412.90984137IPR017930Myb domain
SMARTSM007173.0E-984135IPR001005SANT/Myb domain
PfamPF002493.2E-985132IPR001005SANT/Myb domain
CDDcd001672.09E-887133No hitNo description
Gene3DG3DSA:1.10.10.609.1E-2287136IPR009057Homeodomain-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: 344 aa     Download sequence    Send to blast
MMMRNQDITT IRDKKKPNHA CGGSNNKPKL RKGLWSPDED ERLIRYMLTN GQGCWSDIAR  60
NAGLLRCGKS CRLRWINYLR PDLKRGAFSP QEEDLIIHFH SILAIIYNKW SQIATRLPGR  120
TDNEIKNFWN STLKKRFKNN NNNTSSGSSP NNSNSNSLDL RDQHVEMGGK SNSMMGSYHH  180
QHDDMMIMGN TMGMDSSSFH FAPVVSGVGL NQLDPLISVP DHSQYQQMGN TGNVFNVNGL  240
GDYGNAILDP ISKRASVESE WFLPASENIN SIPCTTSNNL NVEVLDPCFN SKTMCHSESF  300
KVGNMFGMEN ASWETENPKI GDWDLDGLID DNSSFPFLDF QVD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C1e-242813723128MYB TRANSFORMING PROTEIN
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11431KKPNHACGGSNNKPKLRK
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed specifically in fiber and vessel cells that are undergoing secondary wall thickening in floral stems. Expressed in vessels but not in xylary fibers in the developing secondary xylem of roots. {ECO:0000269|PubMed:19808805}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00004162001
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_013628391.10.0PREDICTED: transcription factor TT2
RefseqXP_013684620.10.0transcription factor MYB83-like
SwissprotQ9C6U10.0MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A078JYG50.0A0A078JYG5_BRANA; BnaCnng68780D protein
TrEMBLA0A3P6AK700.0A0A3P6AK70_BRAOL; Uncharacterized protein
STRINGBo3g061630.10.0(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
AT3G08500.11e-175myb domain protein 83
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. 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]
  3. 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]