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_009135021.1
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: 340aa    MW: 38244.7 Da    PI: 6.7318
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009135021.1genomeNCBIView 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
   XP_009135021.1 32 KGLWSPDEDERLIRYMLTNGQGCWSDIARNAGLLRCGKSCRLRWINYL 79
                     678*****************************99************97 PP
2Myb_DNA-binding48.52.1e-1585129147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      rg+++++E++l+++ +  lG++ W+ Ia +++ gRt++++k++w++ 
   XP_009135021.1  85 RGSFSPQEEDLIIHFHSILGNR-WSQIATRLP-GRTDNEIKNFWNST 129
                      899*******************.*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.4312779IPR017930Myb domain
SuperFamilySSF466891.68E-2729126IPR009057Homeodomain-like
SMARTSM007174.1E-123181IPR001005SANT/Myb domain
PfamPF002497.1E-143279IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.608.4E-223386IPR009057Homeodomain-like
CDDcd001677.49E-103579No hitNo description
PROSITE profilePS5129423.74980134IPR017930Myb domain
SMARTSM007171.9E-1584132IPR001005SANT/Myb domain
PfamPF002492.9E-1485129IPR001005SANT/Myb domain
CDDcd001678.04E-1187130No hitNo description
Gene3DG3DSA:1.10.10.601.0E-2487133IPR009057Homeodomain-like
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: 340 aa     Download sequence    Send to blast
MMMRNQDITT IRDKKKPTHA CGGSNNKPKL RKGLWSPDED ERLIRYMLTN GQGCWSDIAR  60
NAGLLRCGKS CRLRWINYLR PDLKRGSFSP QEEDLIIHFH SILGNRWSQI ATRLPGRTDN  120
EIKNFWNSTL KKRFKNNNNN TSSGSSPNNS NSNSLDLRDQ HVEMGGKSNS MMGSYHHHHD  180
DMMIMGNTMG MDSSSFHFAP VVSGLGLNQL DPLISVPDHS QYQQMGNTGN VFNANGLGDY  240
GNAILDPISK RASVESEWFL PASENINAIP CTTSNNLNVE VLDPCFNSKT MCHSESFKVG  300
NMFGMENASW ETENPKIGDW DLDGLIDNNS SFPFLDFQVD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C2e-282813423128MYB TRANSFORMING PROTEIN
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11431KKPTHACGGSNNKPKLRK
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00336DAPTransfer from AT3G08500Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009135021.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009135021.10.0PREDICTED: transcription factor TT2-like
SwissprotQ9C6U10.0MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A398A2D70.0A0A398A2D7_BRACM; Uncharacterized protein
TrEMBLM4CAQ50.0M4CAQ5_BRARP; Uncharacterized protein
STRINGBra001284.1-P0.0(Brassica rapa)
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]