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_009108835.1
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: 919aa    MW: 101762 Da    PI: 5.3451
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009108835.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding56.18.2e-183278148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g WT+eEd+ l +av+++ g++Wk+Ia+++   Rt+ qc +rwqk+l
   XP_009108835.1 32 KGQWTPEEDQVLCKAVERFQGKNWKKIAECFK-DRTDVQCLHRWQKVL 78
                     799****************************9.************986 PP
2Myb_DNA-binding58.12e-1884130148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      +g+W++eEd  ++ +v+++G+  W+tI ++++ gR +kqc++rw+++l
   XP_009108835.1  84 KGPWSKEEDNTIIALVEKYGPTKWSTICQHLP-GRIGKQCRERWHNHL 130
                      79******************************.*************97 PP
3Myb_DNA-binding52.61e-16136178145
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      +++WT+eE++ l++a++ +G++ W+  ++ ++ gR+++++k++w+
   XP_009108835.1 136 KNAWTQEEELTLIRAHQIYGNK-WADLMKFLP-GRSDNSIKNHWN 178
                      689*******************.*********.***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.3932778IPR017930Myb domain
SMARTSM007171.7E-143180IPR001005SANT/Myb domain
PfamPF002494.8E-153278IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.0E-213385IPR009057Homeodomain-like
SuperFamilySSF466891.29E-153388IPR009057Homeodomain-like
CDDcd001672.41E-133578No hitNo description
PROSITE profilePS5129431.52679134IPR017930Myb domain
SuperFamilySSF466893.03E-3081177IPR009057Homeodomain-like
SMARTSM007172.6E-1783132IPR001005SANT/Myb domain
PfamPF002492.3E-1784130IPR001005SANT/Myb domain
CDDcd001672.74E-1586130No hitNo description
Gene3DG3DSA:1.10.10.604.4E-2686134IPR009057Homeodomain-like
PROSITE profilePS5129418.256135185IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.1E-20135185IPR009057Homeodomain-like
SMARTSM007171.4E-14135183IPR001005SANT/Myb domain
PfamPF002491.4E-14136179IPR001005SANT/Myb domain
CDDcd001677.31E-11138178No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003713Molecular Functiontranscription coactivator activity
Sequence ? help Back to Top
Protein Sequence    Length: 919 aa     Download sequence    Send to blast
MKAPTNLPQD GLQGTQKGSH GRTCGPARRS TKGQWTPEED QVLCKAVERF QGKNWKKIAE  60
CFKDRTDVQC LHRWQKVLNP ELVKGPWSKE EDNTIIALVE KYGPTKWSTI CQHLPGRIGK  120
QCRERWHNHL NPAINKNAWT QEEELTLIRA HQIYGNKWAD LMKFLPGRSD NSIKNHWNSS  180
VKKKLDSYYA SGLLDQCQSS PLIPPQNRSI ASSSSWTPSS GDEGKFTPGA DAEESECSQA  240
STVFSCSQTT NDLLDEVKPA DEEFYIPELP SGKEQQISNS PSHAESSKKY QNQTEVSTTT  300
ATEDHLQGDC PHLLTHNLAG EGRNEACQDL QNSVRLSDQP SSPNSDTDIH PQPQTLITDE  360
ECCMVLFPNN MKDSDTSYGE QGQNMVEPQK ANGSHANEIG NIPALSWHPS NSEGRAGHSS  420
VPLLYSDMKD SLLLRNDSND TVQGCHLLGS TALERKTDTN DGFIDADGLV TSHGIDDNDG  480
IPGQQDLSYI PKDSLKLVPL NNFSSPARVK KIHFPIDDKP TEKDKGTLCY EPPRFPSADI  540
PFFSCDLAPS SSDLRQEYSP FGIRQLMISS MSCTTPLRLW DSPCHDKTPD VMLKDAAKSF  600
SGAPAILKKR HRDFLSPVLD RRKGKMVKSA EASSLAKDFS RLDVMLDDGD DNKGASSSEA  660
KEDPKETLES GVVTSAKIDQ ETRRSLAYHN DVEMKLSSPD KTGFRPDNEV NTVAKDLSNQ  720
HEKSVGTIPT GEISSELPFT TDSIPLSAFA EINTNTAESS LDIIENYSIF DGTPFKKLLD  780
TPSPWKSPLL FGSFSQSPNL PPEITFEDIG CFMSPGERSY DAIGLMKHLS EHTATAYADA  840
LEVLGNDTPE TILKKRQMNR SIQGKENQLW PHDQLENRSQ VECRALDFSD CVTPGKAKVS  900
SSSPRGYTSP SSYLLKSCR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h88_C2e-65321856159MYB PROTO-ONCOGENE PROTEIN
1h89_C2e-65321856159MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Accumulates in the columella root cap. Also present in floral organs in young flower buds. Strongly expressed in vascular tissues of filaments and anthers. Weakly and uniformly present in the developing embryo and maternal tissues (PubMed:17287251). Expressed both in proliferating and maturing stages of leaves (PubMed:26069325). {ECO:0000269|PubMed:17287251, ECO:0000269|PubMed:26069325}.
UniprotTISSUE SPECIFICITY: Expressed ubiquitously at low levels (PubMed:10743663). Expressed in roots, cotyledons, flowers and leaves, especially in vascular tissues (PubMed:17287251). {ECO:0000269|PubMed:10743663, 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). Transcription activator 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). Transcription repressor that regulates organ growth. Binds to the promoters of G2/M-specific genes and to E2F target genes to prevent their expression in post-mitotic cells and to restrict the time window of their expression in proliferating cells (PubMed:26069325). Required for the maintenance of diploidy (PubMed:21862669). {ECO:0000269|PubMed:17287251, ECO:0000269|PubMed:21862669, ECO:0000269|PubMed:26069325}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00466DAPTransfer from AT4G32730Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009108835.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Constant levels during cell cycle. Activated by CYCB1. {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
GenBankAF1516460.0AF151646.1 Arabidopsis thaliana PC-MYB1 (PC-MYB1) mRNA, complete cds.
GenBankAF1760050.0AF176005.2 Arabidopsis thaliana putative c-myb-like transcription factor (AtMYB3R-1) mRNA, complete cds.
GenBankAF1897840.0AF189784.1 Arabidopsis thaliana putative c-myb-like transcription factor (MYB3R-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009108835.10.0PREDICTED: myb-related protein 3R-1-like
SwissprotQ9S7G70.0MB3R1_ARATH; Transcription factor MYB3R-1
TrEMBLM4F0D70.0M4F0D7_BRARP; Uncharacterized protein
STRINGBra034531.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM46742649
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32730.20.0Homeodomain-like protein
Publications ? help Back to Top
  1. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]