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_009133733.1
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: 250aa    MW: 28747.7 Da    PI: 9.3259
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009133733.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.33e-31958150
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                    k ienk+nrqvtfskRrng++KKA+ELSvLCdaeva+i+fss+gklye+ 
  XP_009133733.1  9 KLIENKINRQVTFSKRRNGLMKKAYELSVLCDAEVALIVFSSRGKLYEFG 58
                    569*********************************************95 PP
2K-box96.24.9e-3275171399
           K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                     +s ++s  e+ +++++qe++kLk+ +e+L r++RhllGedL+++slkeL  Le+qLe +l++ R++K+++++e++e+l+kke++l ++nk+L+ k
  XP_009133733.1  75 RSLSNSRPEESTQNWCQEVTKLKSHYESLVRTNRHLLGEDLGKMSLKELLGLERQLEAALTTTRKRKTQVMIEEMEDLRKKERQLGDINKQLKIK 169
                     45556678899*********************************************************************************999 PP

           K-box  98 le 99 
                     ++
  XP_009133733.1 170 FD 171
                     86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.534161IPR002100Transcription factor, MADS-box
SMARTSM004322.2E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.92E-34289IPR002100Transcription factor, MADS-box
CDDcd002654.45E-43278No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.1E-31323IPR002100Transcription factor, MADS-box
PfamPF003192.0E-271157IPR002100Transcription factor, MADS-box
PRINTSPR004042.1E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004042.1E-313859IPR002100Transcription factor, MADS-box
PfamPF014865.2E-3083170IPR002487Transcription factor, K-box
PROSITE profilePS5129715.32986176IPR002487Transcription 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: 250 aa     Download sequence    Send to blast
MGRGRVEMKL IENKINRQVT FSKRRNGLMK KAYELSVLCD AEVALIVFSS RGKLYEFGSV  60
GVERTIERYH RCYNRSLSNS RPEESTQNWC QEVTKLKSHY ESLVRTNRHL LGEDLGKMSL  120
KELLGLERQL EAALTTTRKR KTQVMIEEME DLRKKERQLG DINKQLKIKF DQAEGLAFKS  180
FQYLWPNTAA SVAGDPSNSE FPVQSSSVDC NTEPFLQIGF QQHYYVQGEG SSVSKSNIAC  240
KTNFVQDWVL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P4e-20188181Myocyte-specific enhancer factor 2B
1tqe_Q4e-20188181Myocyte-specific enhancer factor 2B
1tqe_R4e-20188181Myocyte-specific enhancer factor 2B
1tqe_S4e-20188181Myocyte-specific enhancer factor 2B
5f28_A4e-20188181MEF2C
5f28_B4e-20188181MEF2C
5f28_C4e-20188181MEF2C
5f28_D4e-20188181MEF2C
6byy_A4e-20188181MEF2 CHIMERA
6byy_B4e-20188181MEF2 CHIMERA
6byy_C4e-20188181MEF2 CHIMERA
6byy_D4e-20188181MEF2 CHIMERA
6c9l_A4e-20188181Myocyte-specific enhancer factor 2B
6c9l_B4e-20188181Myocyte-specific enhancer factor 2B
6c9l_C4e-20188181Myocyte-specific enhancer factor 2B
6c9l_D4e-20188181Myocyte-specific enhancer factor 2B
6c9l_E4e-20188181Myocyte-specific enhancer factor 2B
6c9l_F4e-20188181Myocyte-specific enhancer factor 2B
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1136141TRKRKT
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Preferentially expressed in flowers.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Forms a heterodimer via the K-box domain with AG, that could be involved in genes regulation during floral meristem development.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009133733.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5084090.0AJ508409.1 Brassica oleracea var. botrytis mRNA for MADS-box protein AGL6-a (agl6-a gene), short splice variant.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009133733.10.0PREDICTED: agamous-like MADS-box protein AGL6 isoform X2
RefseqXP_013740649.20.0agamous-like MADS-box protein AGL6 isoform X2
SwissprotP293861e-155AGL6_ARATH; Agamous-like MADS-box protein AGL6
TrEMBLA0A398A3R50.0A0A398A3R5_BRACM; Uncharacterized protein
STRINGBra000392.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45650.11e-157AGAMOUS-like 6
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. Dreni L,Zhang D
    Flower development: the evolutionary history and functions of the AGL6 subfamily MADS-box genes.
    J. Exp. Bot., 2016. 67(6): p. 1625-38
    [PMID:26956504]