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_59875.1_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_related
Protein Properties Length: 91aa    MW: 10630.2 Da    PI: 10.1885
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_59875.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding54.13.5e-171663148
                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                             rg+W+++Ed++l+  ++++G ++W++ ++  g+ R++k+c++rw +yl
  Rsa1.0_59875.1_g00001.1 16 RGPWSQDEDLKLISFIHKYGHENWRSLPNQAGLLRCGKSCRLRWINYL 63
                             89******************************99************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.7E-25766IPR009057Homeodomain-like
PROSITE profilePS5129421.1811167IPR017930Myb domain
SMARTSM007176.9E-131565IPR001005SANT/Myb domain
PfamPF002493.3E-161663IPR001005SANT/Myb domain
SuperFamilySSF466895.74E-231790IPR009057Homeodomain-like
CDDcd001674.13E-101863No hitNo description
PROSITE profilePS500904.6586491IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.606.7E-106790IPR009057Homeodomain-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: 91 aa     Download sequence    Send to blast
MGKGRAPCCD KTKVKRGPWS QDEDLKLISF IHKYGHENWR SLPNQAGLLR CGKSCRLRWI  60
NYLRPDLKRG NFTLEEEETI IKLHQSFGNK S
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-141690780B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that binds DNA to the AC cis-elements 5'-ACCTACC-3', 5'-ACCAACC-3' and 5'-ACCTAAC-3' of promoters and specifically activates lignin biosynthetic genes during secondary wall formation mediated by SND1. {ECO:0000269|PubMed:19122102}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_59875.1_g00001.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by light (PubMed:9839469). Regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream targets MYB46 and MYB83 (PubMed:19122102, PubMed:22197883). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM9756541e-131KM975654.1 Brassica napus MYB transcription factor 58.1 (MYB58.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018436892.15e-62PREDICTED: myb-related protein Zm1-like isoform X1
RefseqXP_018436893.14e-62PREDICTED: myb-related protein Zm1-like isoform X2
SwissprotQ9SA474e-58MYB58_ARATH; Transcription factor MYB58
TrEMBLA0A078D0J56e-60A0A078D0J5_BRANA; MYB transcription factor 58.1
TrEMBLA0A0D3DWZ96e-60A0A0D3DWZ9_BRAOL; Uncharacterized protein
TrEMBLA0A397YCH75e-60A0A397YCH7_BRACM; Uncharacterized protein
TrEMBLA0A3P5YT025e-60A0A3P5YT02_BRACM; Uncharacterized protein
TrEMBLA0A3P6GFV06e-60A0A3P6GFV0_BRAOL; Uncharacterized protein
TrEMBLM4ED605e-60M4ED60_BRARP; Uncharacterized protein
STRINGBra026720.1-P8e-61(Brassica rapa)
STRINGBo8g105490.19e-61(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G16490.12e-60myb domain protein 58
Publications ? help Back to Top
  1. Fernández-Pérez F,Vivar T,Pomar F,Pedreño MA,Novo-Uzal E
    Peroxidase 4 is involved in syringyl lignin formation in Arabidopsis thaliana.
    J. Plant Physiol., 2015. 175: p. 86-94
    [PMID:25506770]
  2. Noda S, et al.
    The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63.
    Planta, 2015. 242(3): p. 589-600
    [PMID:26070439]
  3. 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]