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_009111804.1
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 MIKC_MADS
Protein Properties Length: 248aa    MW: 27970.1 Da    PI: 9.8844
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009111804.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF90.11.2e-281058250
                    ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
          SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                    rienk++rqvtfskRr+g+ KKA+E+SvLCda+va+i+fs++gkl eys
  XP_009111804.1 10 RIENKIRRQVTFSKRRTGLVKKAQEISVLCDADVALIVFSPKGKLSEYS 58
                    8***********************************************8 PP
2K-box82.31.1e-27861721298
           K-box  12 akaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                     + + ++++e +kL + ++ +qr++Rhl Ge+++ Ls++eLq Le qL++slk+ Rs+Kn+l++e+i +l+kkekel+e +k+L+kk 
  XP_009111804.1  86 NSQGECSTECSKLLRMVDVMQRSLRHLNGEEVDALSIRELQDLEMQLDTSLKRTRSRKNQLMVESIAQLKKKEKELKELKKQLTKKA 172
                     45678999****************************************************************************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.053161IPR002100Transcription factor, MADS-box
SMARTSM004323.7E-36160IPR002100Transcription factor, MADS-box
CDDcd002651.06E-38279No hitNo description
SuperFamilySSF554557.72E-31284IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.7E-27323IPR002100Transcription factor, MADS-box
PfamPF003196.5E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004042.7E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004042.7E-273859IPR002100Transcription factor, MADS-box
PfamPF014868.2E-2387171IPR002487Transcription factor, K-box
PROSITE profilePS5129714.26188178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 248 aa     Download sequence    Send to blast
MGRGRVQLRR IENKIRRQVT FSKRRTGLVK KAQEISVLCD ADVALIVFSP KGKLSEYSAG  60
SSMERILERY ERCSYAGQDI TTPSLNSQGE CSTECSKLLR MVDVMQRSLR HLNGEEVDAL  120
SIRELQDLEM QLDTSLKRTR SRKNQLMVES IAQLKKKEKE LKELKKQLTK KADPREDSEP  180
QTLNQGLASL ATPPCEPPHP LPGPLSPHRP LSLGDTSQRN EDGKVDAGTL IRVTNTTLPH  240
WMPRLTGE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-18170169MEF2C
5f28_B5e-18170169MEF2C
5f28_C5e-18170169MEF2C
5f28_D5e-18170169MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in tendrils and flowers. {ECO:0000269|PubMed:15247405}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009111804.1
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_009111804.10.0PREDICTED: truncated transcription factor CAULIFLOWER A-like
SwissprotQ6E6S76e-72AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLM4F5450.0M4F545_BRARP; Uncharacterized protein
STRINGBra036201.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM130331525
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G30260.11e-116AGAMOUS-like 79
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]