PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_14336.1_g00001.1
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: 267aa    MW: 30214.9 Da    PI: 6.7814
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_14336.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding45.71.5e-141966148
                             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
  Rsa1.0_14336.1_g00001.1 19 KGLWSPEEDSKLMQYMINNGQGCWSDVAKNAGLQRCGKSCRLRWINYL 66
                             678*******************************************97 PP
2Myb_DNA-binding52.88.8e-1772115146
                              TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
          Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                              rg+++++E+el+++ +  lG++ W+ Ia++m+ gRt++++k++w++
  Rsa1.0_14336.1_g00001.1  72 RGAFSPQEEELIIRFHSILGNR-WSQIAARMP-GRTDNEIKNFWNS 115
                              89********************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129414.9221466IPR017930Myb domain
SuperFamilySSF466896.97E-2817113IPR009057Homeodomain-like
SMARTSM007171.2E-101868IPR001005SANT/Myb domain
PfamPF002491.0E-131966IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.2E-232073IPR009057Homeodomain-like
CDDcd001671.36E-82266No hitNo description
PROSITE profilePS5129425.00667121IPR017930Myb domain
SMARTSM007175.4E-1671119IPR001005SANT/Myb domain
PfamPF002493.0E-1572115IPR001005SANT/Myb domain
CDDcd001673.06E-1174114No hitNo description
Gene3DG3DSA:1.10.10.601.2E-2574122IPR009057Homeodomain-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: 267 aa     Download sequence    Send to blast
MRKPEVASAA THQVKKMKKG LWSPEEDSKL MQYMINNGQG CWSDVAKNAG LQRCGKSCRL  60
RWINYLRPDL KRGAFSPQEE ELIIRFHSIL GNRWSQIAAR MPGRTDNEIK NFWNSTIKKR  120
LKKMSDASSL VNNSSSSPNA SDSSSNNTSS SLDLKDIIGS FMSFQEQGFV NPSLTNIPTS  180
NNPFQAPHMI SHPCHDDYTP YVDGFYGVNT RLQGGIYFPP LECEEGDWYK ADINNHVVEM  240
NTNGAGNVPE GMRMEEYWDL DQLMSTE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-27171215108B-MYB
Search in ModeBase
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
PlantRegMapRsa1.0_14336.1_g00001.1
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_018465868.10.0PREDICTED: transcription factor MYB46-like
SwissprotQ9LXV21e-155MYB46_ARATH; Transcription factor MYB46
TrEMBLA0A0D3B0V41e-168A0A0D3B0V4_BRAOL; Uncharacterized protein
STRINGBo3g008870.11e-169(Brassica oleracea)
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-150myb 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]