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 XP_009121937.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MYB
Protein Properties Length: 876aa    MW: 97981 Da    PI: 5.821
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009121937.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding56.56.3e-184288148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg WT+eEde+l +av+ + g++Wk+Ia+ +   Rt+ qc +rwqk+l
   XP_009121937.1 42 RGQWTAEEDEILTKAVHSFKGKNWKKIAEFFK-DRTDVQCLHRWQKVL 88
                     89*****************************9.************986 PP
2Myb_DNA-binding62.96.2e-2094140148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g+WT+eEde +v++++++G++ W+tIar ++ gR +kqc++rw+++l
   XP_009121937.1  94 KGPWTKEEDEMIVQLIQKYGPKKWSTIARFLP-GRIGKQCRERWHNHL 140
                      79******************************.*************97 PP
3Myb_DNA-binding43.29.4e-14146188145
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      + +WT+eE++ l++a++ +G++ W+   + ++ gR+++ +k++w+
   XP_009121937.1 146 KEAWTQEEELVLIRAHQIYGNR-WAELTKFLP-GRSDNGIKNHWH 188
                      579*******************.*********.***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.6733788IPR017930Myb domain
SMARTSM007174.6E-154190IPR001005SANT/Myb domain
PfamPF002491.5E-154288IPR001005SANT/Myb domain
SuperFamilySSF466892.37E-154398IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.3E-224396IPR009057Homeodomain-like
CDDcd001671.39E-134588No hitNo description
PROSITE profilePS5129432.29789144IPR017930Myb domain
SuperFamilySSF466891.03E-3191187IPR009057Homeodomain-like
SMARTSM007175.1E-1993142IPR001005SANT/Myb domain
PfamPF002499.5E-1894140IPR001005SANT/Myb domain
CDDcd001676.62E-1796140No hitNo description
Gene3DG3DSA:1.10.10.601.9E-2797144IPR009057Homeodomain-like
SMARTSM007171.5E-12145193IPR001005SANT/Myb domain
PROSITE profilePS5129418.094145195IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.4E-19145195IPR009057Homeodomain-like
PfamPF002498.6E-12146188IPR001005SANT/Myb domain
CDDcd001677.65E-10148188No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0032875Biological Processregulation of DNA endoreduplication
GO:0003677Molecular FunctionDNA binding
GO:0003713Molecular Functiontranscription coactivator activity
Sequence ? help Back to Top
Protein Sequence    Length: 876 aa     Download sequence    Send to blast
MESECTTTTS STPPPPPPQG TTQGNPKSRQ GRTSGPARRS TRGQWTAEED EILTKAVHSF  60
KGKNWKKIAE FFKDRTDVQC LHRWQKVLNP ELVKGPWTKE EDEMIVQLIQ KYGPKKWSTI  120
ARFLPGRIGK QCRERWHNHL NPAINKEAWT QEEELVLIRA HQIYGNRWAE LTKFLPGRSD  180
NGIKNHWHSS VKKKLDSYMS SGLLDQYQAM PLAPYDRNSA LQSHFMQSTM DGSGCVSGQA  240
EQEIEHGIMN MGQPFHHPCE NSHTNERAAY HQDQYYYPEL EDISVSISEA SYDMEDCSQF  300
PDHNVSASTS QDYQFDFQEL SDISLEMSHN TSEIPMTYTK ERKEASLGAP NSTSNIDVAA  360
YTNTSETECC RVLFLDQESE GVSVSRSSTQ EPHEVLCASA SDSQVSEATK SPVKSSSSTS  420
IATPASGKET LRPSPLIITP DKYSKKSSGL ICHPFEAEPN CRTDENGSFI CINDPSNSTC  480
VDEGPSYHLN DSKKLVPVND FTSLADVKPQ PSLPKHETNM SREQHREDMG ASSSSLCFPS  540
LDLPAFNDPV HDYSPLGIRK LLMSTMTCMS PLRLWESPTG KKTLVGAKSI LRKRTRDLLT  600
PLSEKRSDKK LETDIAASLA KDFSRLDVMF DESENQESIS GTSLVSHRMP EETTDVSKSL  660
EKQQQTCLEA NVQHAESFSG VLSESNTNKQ VLSPPGQSLT KAEKTQVSTP RNHLQRTLMA  720
TSNKEQHSSP SLCLVINSPS RARNTEGHLV DNQTSNENFS IFCGTPFRRG LESPSAWKSP  780
FYVNSLLPSP RFDTDITIED MGYIFSPGER SYESIGIFTQ RHEHTSAFAA FNAMEISLSP  840
STDDAKKMKD LDKENNDPLM AEGRVLDFND CESPTK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h88_C6e-68421956159MYB PROTO-ONCOGENE PROTEIN
1h89_C6e-68421956159MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the root quiescent center (PubMed:15937229). Accumulates in division zone of primary root tips and emerging lateral roots. Also present in floral organs in young flower buds. Weakly and uniformly present in the developing embryo and maternal tissues (PubMed:17287251). Expressed specifically in proliferating stage of leaves (PubMed:26069325). {ECO:0000269|PubMed:15937229, ECO:0000269|PubMed:17287251, ECO:0000269|PubMed:26069325}.
UniprotTISSUE SPECIFICITY: Expressed in roots, cotyledons and leaves, especially in vascular tissues, and in flowers. {ECO:0000269|PubMed:17287251}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds 5'-AACGG-3' motifs in gene promoters (PubMed:21862669). Involved in the regulation of cytokinesis, probably via the activation of several G2/M phase-specific genes transcription (e.g. KNOLLE) (PubMed:17287251, PubMed:21862669, PubMed:25806785). Required for the maintenance of diploidy (PubMed:21862669). {ECO:0000269|PubMed:17287251, ECO:0000269|PubMed:21862669, ECO:0000269|PubMed:25806785}.; FUNCTION: Involved in transcription regulation during induced endoreduplication at the powdery mildew (e.g. G.orontii) infection site, thus promoting G.orontii growth and reproduction. {ECO:0000269|PubMed:20018666}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00505DAPTransfer from AT5G11510Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009121937.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by salicylic acid (SA) (PubMed:16463103). Expressed in a cell cycle-dependent manner, with highest levels 2 hours before the peak of mitotic index in cells synchronized by aphidicolin. Activated by CYCB1 (PubMed:17287251). Accumulates at powdery mildew (e.g. G.orontii) infected cells. {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:17287251}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3719750.0AF371975.2 Arabidopsis thaliana putative c-myb-like transcription factor MYB3R-4 (MYB3R4) mRNA, complete cds.
GenBankAY5196500.0AY519650.1 Arabidopsis thaliana MYB transcription factor (At5g11510) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013607014.10.0PREDICTED: LOW QUALITY PROTEIN: myb-related protein 3R-1
RefseqXP_022564903.10.0LOW QUALITY PROTEIN: transcription factor MYB3R-4-like
SwissprotQ94FL90.0MB3R4_ARATH; Transcription factor MYB3R-4
TrEMBLM4CXK90.0M4CXK9_BRARP; Uncharacterized protein
STRINGBra008956.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM132131828
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G11510.10.0myb domain protein 3r-4
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. Saito T, et al.
    Genetic interaction between G2/M phase-specific transcription factor MYB3R4 and MAPKKK ANP3 for execution of cytokinesis in Arabidopsis thaliana.
    Plant Signal Behav, 2015. 10(3): p. e990817
    [PMID:25806785]
  3. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]
  4. Chen P, et al.
    Arabidopsis R1R2R3-Myb proteins are essential for inhibiting cell division in response to DNA damage.
    Nat Commun, 2017. 8(1): p. 635
    [PMID:28935922]