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 RrC7643_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: 342aa    MW: 38465.2 Da    PI: 6.9599
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC7643_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding61.12.3e-191461148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg WT+eEd +l+ +++q+G+++W++I++  g+ R++k+c++rw +yl
       RrC7643_p2 14 RGQWTPEEDNKLASYIAQHGTRNWRLIPKNAGLQRCGKSCRLRWTNYL 61
                     89********************************************97 PP
2Myb_DNA-binding409.1e-1368126246
                      SSS-HHHHHHHHHHHHHTTTT...............-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   2 grWTteEdellvdavkqlGgg...............tWktIartmgkgRtlkqcksrwqk 46 
                      g ++  E+ ++v+ +  lG++               +W++Ia+ ++ gRt++++k++w++
       RrC7643_p2  68 GQFSDAEEHIIVKFHSVLGNRhdllyipsllmvlifSWSLIAAQLP-GRTDNDVKNYWNT 126
                      7899******************************************.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.3E-25564IPR009057Homeodomain-like
PROSITE profilePS5129426.27965IPR017930Myb domain
SMARTSM007173.2E-141363IPR001005SANT/Myb domain
PfamPF002495.7E-181461IPR001005SANT/Myb domain
SuperFamilySSF466898.24E-241465IPR009057Homeodomain-like
CDDcd001676.22E-121761No hitNo description
Gene3DG3DSA:1.10.10.603.3E-2065132IPR009057Homeodomain-like
SMARTSM007176.4E-666130IPR001005SANT/Myb domain
PROSITE profilePS5129411.69766132IPR017930Myb domain
PfamPF002491.1E-1068126IPR001005SANT/Myb domain
CDDcd001671.41E-570128No hitNo description
SuperFamilySSF466898.24E-24100129IPR009057Homeodomain-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: 342 aa     Download sequence    Send to blast
MGRIPCCEKD NVKRGQWTPE EDNKLASYIA QHGTRNWRLI PKNAGLQRCG KSCRLRWTNY  60
LRPDLKHGQF SDAEEHIIVK FHSVLGNRHD LLYIPSLLMV LIFSWSLIAA QLPGRTDNDV  120
KNYWNTKLKK KLSGMGIDPV THKPFSHLMA EITTTLNPPQ VSHLAEAALG CFKDEMLHLL  180
TKKRVDLNQI NFSSPNPNHN NPNNFNQTVD NEAGKMKLDG LENGNGIMKL WDMGNGFSYG  240
SSSSSFGNDE RNEGSASPAV AAWRGHGGIR TSVAETAAAE EEERRKLKGE VMDQEEIGSE  300
GGRGDGTMMM RKHHDQHQQH AFSVDDNDLW DLQADDLINH MV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A4e-24141327108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds to the DNA sequence 5'-CCAACC-3'. Regulates directly PME5, UND and GLOX1 (PubMed:21673079). Essential for tapetum development in anthers and microsporogenesis (PubMed:12848824, PubMed:21673079). Regulates the timing of tapetal programmed cell death (PCD) which is critical for pollen development. May act through the activation of UND, encoding an A1 aspartic protease (PubMed:21673079). Required for anther development by regulating tapetum development, callose dissolution and exine formation. Acts upstream of A6 and FAR2/MS2, two genes required for pollen exine formation (PubMed:17727613). Negatively regulates trichome endoreduplication and trichome branching (PubMed:12848824). {ECO:0000269|PubMed:12848824, ECO:0000269|PubMed:17727613, ECO:0000269|PubMed:21673079}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM6757040.0KM675704.1 Brassica juncea MYB80 (MYB80) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018469305.10.0PREDICTED: transcription factor MYB80-like isoform X1
SwissprotQ9XHV00.0MYB80_ARATH; Transcription factor MYB80
TrEMBLA0A3P6DLC90.0A0A3P6DLC9_BRAOL; Uncharacterized protein
STRINGBra002847.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM100052635
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G56110.11e-173myb domain protein 103
Publications ? help Back to Top
  1. Li SF,Iacuone S,Parish RW
    Suppression and restoration of male fertility using a transcription factor.
    Plant Biotechnol. J., 2007. 5(2): p. 297-312
    [PMID:17309685]
  2. Qian H, et al.
    Trace concentrations of imazethapyr (IM) affect floral organs development and reproduction in Arabidopsis thaliana: IM-induced inhibition of key genes regulating anther and pollen biosynthesis.
    Ecotoxicology, 2015. 24(1): p. 163-71
    [PMID:25348600]
  3. Xiong SX, et al.
    The transcription factors MS188 and AMS form a complex to activate the expression of CYP703A2 for sporopollenin biosynthesis in Arabidopsis thaliana.
    Plant J., 2016. 88(6): p. 936-946
    [PMID:27460657]
  4. Verma N,Burma PK
    Regulation of tapetum-specific A9 promoter by transcription factors AtMYB80, AtMYB1 and AtMYB4 in Arabidopsis thaliana and Nicotiana tabacum.
    Plant J., 2017. 92(3): p. 481-494
    [PMID:28849604]
  5. Li DD,Xue JS,Zhu J,Yang ZN
    Gene Regulatory Network for Tapetum Development in Arabidopsis thaliana.
    Front Plant Sci, 2017. 8: p. 1559
    [PMID:28955355]