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 RrC1621_p1
Organism
Raphanus raphanistrum
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: 276aa    MW: 31163.7 Da    PI: 5.2305
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1621_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding57.33.6e-181461148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg+WT+eEd++l+  ++++G  +W++ ++  g+ R++k+c++rw +yl
       RrC1621_p1 14 RGPWTPEEDQILISFIHKHGHSNWRALPKQAGLLRCGKSCRLRWMNYL 61
                     89******************************99************97 PP
2Myb_DNA-binding51.81.9e-1667112148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      rg++T+eE++ ++ +++ lG++ W++Ia++++ gRt++++k+ w+++l
       RrC1621_p1  67 RGNFTKEEEDAIISLHQILGNR-WSAIAAKLP-GRTDNEIKNVWHTHL 112
                      89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.458961IPR017930Myb domain
SuperFamilySSF466893.32E-3110108IPR009057Homeodomain-like
SMARTSM007174.9E-151363IPR001005SANT/Myb domain
PfamPF002493.3E-171461IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.4E-251568IPR009057Homeodomain-like
CDDcd001673.57E-121661No hitNo description
PROSITE profilePS5129425.06462116IPR017930Myb domain
SMARTSM007177.3E-1566114IPR001005SANT/Myb domain
PfamPF002496.4E-1567112IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.1E-2669116IPR009057Homeodomain-like
CDDcd001675.79E-1169112No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009753Biological Processresponse to jasmonic acid
GO:0010200Biological Processresponse to chitin
GO:0046686Biological Processresponse to cadmium ion
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 276 aa     Download sequence    Send to blast
MGRAPCCEKM GLKRGPWTPE EDQILISFIH KHGHSNWRAL PKQAGLLRCG KSCRLRWMNY  60
LKPDIKRGNF TKEEEDAIIS LHQILGNRWS AIAAKLPGRT DNEIKNVWHT HLKKRLEDYQ  120
PANPKSSNKK KGTKPKYQSV PTLGNSSNPS SESLFLASPS TSDEVSSVTL MSLEGHNNEA  180
KMDNKLGDIS IPDQDCSSFE NFGADIDESF WNEALYSQDE HNYASNLEVT GFADETQQEF  240
QQLGSVGNEM VFDSEMDFWF DVFARTGGEQ EQLDGL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A5e-28121175109B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in cold-regulation of CBF genes and in the development of freezing tolerance. May be part of a complex network of transcription factors controlling the expression of CBF genes and other genes in response to cold stress. Binds to the MYB recognition sequences in the promoters of CBF1, CBF2 and CBF3 genes (PubMed:17015446). Involved in drought and salt tolerance. May enhance expression levels of genes involved in abscisic acid (ABA) biosynthesis and signaling, as well as those encoding stress-protective proteins (PubMed:19161942). {ECO:0000269|PubMed:17015446, ECO:0000269|PubMed:19161942}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00375DAPTransfer from AT3G23250Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by abscisic acid (ABA) and drought stress (PubMed:19161942). Induced by salt stress (PubMed:19161942). {ECO:0000269|PubMed:19161942}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1894830.0AC189483.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB083F05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018487092.10.0PREDICTED: myb-related protein Myb4-like
RefseqXP_018491192.10.0PREDICTED: myb-related protein Myb4-like
SwissprotQ9LTC41e-168MYB15_ARATH; Transcription factor MYB15
TrEMBLA0A3P6B8N30.0A0A3P6B8N3_BRAOL; Uncharacterized protein
STRINGBo3g081700.10.0(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
AT3G23250.11e-158myb domain protein 15
Publications ? help Back to Top
  1. Schnaubelt D, et al.
    Low glutathione regulates gene expression and the redox potentials of the nucleus and cytosol in Arabidopsis thaliana.
    Plant Cell Environ., 2015. 38(2): p. 266-79
    [PMID:24329757]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Ma X, et al.
    CYCLIN-DEPENDENT KINASE G2 regulates salinity stress response and salt mediated flowering in Arabidopsis thaliana.
    Plant Mol. Biol., 2015. 88(3): p. 287-99
    [PMID:25948280]
  4. Kim SH, et al.
    Phosphorylation of the transcriptional repressor MYB15 by mitogen-activated protein kinase 6 is required for freezing tolerance in Arabidopsis.
    Nucleic Acids Res., 2017. 45(11): p. 6613-6627
    [PMID:28510716]
  5. Chezem WR,Memon A,Li FS,Weng JK,Clay NK
    SG2-Type R2R3-MYB Transcription Factor MYB15 Controls Defense-Induced Lignification and Basal Immunity in Arabidopsis.
    Plant Cell, 2017. 29(8): p. 1907-1926
    [PMID:28733420]
  6. Pal S, et al.
    TransDetect Identifies a New Regulatory Module Controlling Phosphate Accumulation.
    Plant Physiol., 2017. 175(2): p. 916-926
    [PMID:28827455]