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_009121829.1
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: 280aa    MW: 31758.5 Da    PI: 5.9647
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009121829.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding45.12.3e-142067148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g W++eEd +l ++    G g+W+ +a+  g+ R++k+c++rw +yl
   XP_009121829.1 20 KGLWSPEEDSKLMQYMISNGQGCWSDVAKNAGLQRCGKSCRLRWINYL 67
                     678*******************************************97 PP
2Myb_DNA-binding48.12.7e-1573116146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      rg++++ E++l+++ +  lG++ W+ Ia++++ gRt++++k++w++
   XP_009121829.1  73 RGAFSPHEEDLIIRFHSILGNR-WSQIAARLP-GRTDNEIKNFWNS 116
                      89********************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.602.9E-221570IPR009057Homeodomain-like
PROSITE profilePS5129415.2061567IPR017930Myb domain
SuperFamilySSF466891.84E-2718114IPR009057Homeodomain-like
SMARTSM007175.9E-111969IPR001005SANT/Myb domain
PfamPF002491.5E-132067IPR001005SANT/Myb domain
CDDcd001678.30E-92367No hitNo description
PROSITE profilePS5129423.57868122IPR017930Myb domain
Gene3DG3DSA:1.10.10.605.0E-2571123IPR009057Homeodomain-like
SMARTSM007175.3E-1572120IPR001005SANT/Myb domain
PfamPF002491.2E-1373116IPR001005SANT/Myb domain
CDDcd001673.52E-1075115No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 280 aa     Download sequence    Send to blast
MRKPEVAAVA ATHQVQKTKK GLWSPEEDSK LMQYMISNGQ GCWSDVAKNA GLQRCGKSCR  60
LRWINYLRPD LKRGAFSPHE EDLIIRFHSI LGNRWSQIAA RLPGRTDNEI KNFWNSTIKK  120
RLKKMSDTSN LVNNSSSSPN ASDSSSNSSS SLEFKDIIGS FMSFQEQGFI NPSLTNIPTT  180
NNLFTTPHMF SHSFNEDFTP CVDGLYGVNT GLQGELYPPL ECEEGDWYKA EINNHLDDVN  240
TNGAGNVPES MRMEECWDLD QLMNTEVPSF YFNFNFKQNI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-27201227108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed at low levels in stems and siliques, specifically in xylem. {ECO:0000269|PubMed:16581911, ECO:0000269|PubMed:17890373, ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator. Involved in the regulation of secondary wall biosynthesis in fibers and vessels (PubMed:17890373). Transcription activator of the mannan synthase CSLA9 that recognizes and binds to the DNA consensus sequence 5'-[AG][GT]T[AT]GGT[GA]-3' cis-regulatory element of CSLA9 promoter (PubMed:24243147). Transcription factor that acts as molecular switch in the NAC012/SND1-mediated transcriptional network regulating secondary wall biosynthesis. Is directly activated by NAC012/SND1. Functions redundantly with MYB83 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). Is an obligate component of the transcriptional regulatory complex toward the commitment of secondary wall cellulose synthesis. Is required for functional expression of the three secondary wall CESA genes, CESA4, CESA7 and CESA8 (PubMed:23726771). {ECO:0000269|PubMed:17890373, ECO:0000269|PubMed:19808805, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:23726771, ECO:0000269|PubMed:24243147}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009121829.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by salicylic acid (SA). Positively regulated by SND1 and homolog proteins. {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:17890373}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF7382830.0KF738283.1 Brassica napus MYB transcription factor 46 (MYB46.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009121829.10.0PREDICTED: transcription factor MYB46
RefseqXP_013666086.10.0transcription factor MYB46
SwissprotQ9LXV21e-156MYB46_ARATH; Transcription factor MYB46
TrEMBLA0A078ISC50.0A0A078ISC5_BRANA; BnaA10g30020D protein
TrEMBLA0A397XWN90.0A0A397XWN9_BRACM; Uncharacterized protein
TrEMBLM4CXC80.0M4CXC8_BRARP; Uncharacterized protein
STRINGBra008875.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM61152347
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12870.11e-153myb domain protein 46
Publications ? help Back to Top
  1. Zhao Q, et al.
    Pinoresinol reductase 1 impacts lignin distribution during secondary cell wall biosynthesis in Arabidopsis.
    Phytochemistry, 2015. 112: p. 170-8
    [PMID:25107662]
  2. Sakamoto S,Mitsuda N
    Reconstitution of a secondary cell wall in a secondary cell wall-deficient Arabidopsis mutant.
    Plant Cell Physiol., 2015. 56(2): p. 299-310
    [PMID:25535195]
  3. 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]
  4. Takeuchi M,Kegasa T,Watanabe A,Tamura M,Tsutsumi Y
    Expression analysis of transporter genes for screening candidate monolignol transporters using Arabidopsis thaliana cell suspensions during tracheary element differentiation.
    J. Plant Res., 2018. 131(2): p. 297-305
    [PMID:28921082]