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 RrC2215_p2
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: 310aa    MW: 35332.3 Da    PI: 5.3827
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2215_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding47.83.4e-151663148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg+W++ Ed+ l+  ++++G ++W++ ++  g+ R++k+c++rw +yl
       RrC2215_p2 16 RGPWSPKEDLTLITFIQKHGHHNWRSLPKLAGLMRCGKSCRLRWINYL 63
                     89********************************************97 PP
2Myb_DNA-binding50.35.4e-1669114148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      rg++++eE++ +++ ++ lG++ W++Ia++++ gRt++++k+ w+++l
       RrC2215_p2  69 RGNFSKEEEDAIIHFHQTLGNK-WSKIASYLP-GRTDNEIKNVWNTHL 114
                      89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.604.2E-23766IPR009057Homeodomain-like
PROSITE profilePS5129413.9751163IPR017930Myb domain
SuperFamilySSF466898.07E-3014110IPR009057Homeodomain-like
SMARTSM007172.3E-111565IPR001005SANT/Myb domain
PfamPF002491.8E-141663IPR001005SANT/Myb domain
CDDcd001671.21E-91863No hitNo description
PROSITE profilePS5129424.24364118IPR017930Myb domain
Gene3DG3DSA:1.10.10.605.3E-2667118IPR009057Homeodomain-like
SMARTSM007179.2E-1568116IPR001005SANT/Myb domain
PfamPF002495.4E-1569114IPR001005SANT/Myb domain
CDDcd001671.08E-1071114No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009866Biological Processinduced systemic resistance, ethylene mediated signaling pathway
GO:0071281Biological Processcellular response to iron ion
GO:0071732Biological Processcellular response to nitric oxide
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 310 aa     Download sequence    Send to blast
MGKGRAPCCD QSKVKRGPWS PKEDLTLITF IQKHGHHNWR SLPKLAGLMR CGKSCRLRWI  60
NYLRPDVKRG NFSKEEEDAI IHFHQTLGNK WSKIASYLPG RTDNEIKNVW NTHLKKRLFP  120
NSSRSSSYSS ISCPQERTTE ANQNKNYAVV QEEGNSRDNE SQDSPSSSHL HGKNMHKKPE  180
LHEANELQEI QLLLDLDDFD DITSAFLQTI ETLLPVQPLD SLLQTHTLTG FHNTGGATQE  240
ATELQPFDHS QPEIPCGFEE TNGEFDLLSQ LVESNSPTPS PTSEEFEEWL SFMDNQTYFD  300
DFTLLGEVCL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-25161187108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in metal ions homeostasis, including iron ions (Fe) acquisition, via the regulation of NAS4 and NAS2 genes expression. Necessary for plant survival in alkaline soil where iron availability is greatly restricted (PubMed:18088336, PubMed:24278034). Involved in the up-regulation of several biosynthesis genes of secondary metabolites involved in iron uptake under conditions of iron deficiency (PubMed:25138267). Triggers tolerance to nickel (Ni) and zinc (Zn) ions (PubMed:24278034). Required in the roots during early signaling steps of rhizobacteria-mediated (e.g. P.fluorescens WCS417r) and beneficial fungi-mediated (e.g. T.asperellum T34) broad-spectrum induced systemic resistance (ISR) against several pathogens (e.g. P.syringae pv tomato, H.parasitica, P.cucumerina, A.brassicicola and B.cinerea) and implying enhanced callose deposition (PubMed:18218967, PubMed:19121118). Required for the induction of some genes (e.g. BGLU42) upon rhizobacteria-mediated ISR (PubMed:25138267). {ECO:0000269|PubMed:18088336, ECO:0000269|PubMed:18218967, ECO:0000269|PubMed:19121118, ECO:0000269|PubMed:24278034, ECO:0000269|PubMed:25138267}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Accumulates strongly in the root stele when exposed to iron (Fe)-deficient conditions (PubMed:24278034). Accumulates upon potassium ion (K) depletion (PubMed:15489280). Induced in roots by zinc (Zn) and cadmium (Cd) ions (PubMed:18088336). Specifically activated in the roots upon colonization by nonpathogenic P.fluorescens WCS417r (PubMed:18218967). {ECO:0000269|PubMed:15489280, ECO:0000269|PubMed:18088336, ECO:0000269|PubMed:18218967, ECO:0000269|PubMed:24278034}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018450470.10.0PREDICTED: transcription repressor MYB6
SwissprotQ9SGU31e-136MYB72_ARATH; Transcription factor MYB72
TrEMBLM4EPU10.0M4EPU1_BRARP; Uncharacterized protein
STRINGBra030812.1-P0.0(Brassica rapa)
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
AT1G56160.11e-127myb domain protein 72
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Zamioudis C, et al.
    Rhizobacterial volatiles and photosynthesis-related signals coordinate MYB72 expression in Arabidopsis roots during onset of induced systemic resistance and iron-deficiency responses.
    Plant J., 2015. 84(2): p. 309-22
    [PMID:26307542]
  3. Zhou C, et al.
    Paenibacillus polymyxa BFKC01 enhances plant iron absorption via improved root systems and activated iron acquisition mechanisms.
    Plant Physiol. Biochem., 2016. 105: p. 162-173
    [PMID:27105423]
  4. Wang C,Yao X,Yu D,Liang G
    Fe-deficiency-induced expression of bHLH104 enhances Fe-deficiency tolerance of Arabidopsis thaliana.
    Planta, 2017. 246(3): p. 421-431
    [PMID:28451750]
  5. Martínez-Medina A,Van Wees SCM,Pieterse CMJ
    Airborne signals from Trichoderma fungi stimulate iron uptake responses in roots resulting in priming of jasmonic acid-dependent defences in shoots of Arabidopsis thaliana and Solanum lycopersicum.
    Plant Cell Environ., 2017. 40(11): p. 2691-2705
    [PMID:28667819]
  6. Stringlis IA, et al.
    MYB72-dependent coumarin exudation shapes root microbiome assembly to promote plant health.
    Proc. Natl. Acad. Sci. U.S.A., 2018. 115(22): p. E5213-E5222
    [PMID:29686086]