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_013628775.1
Organism
Brassica oleracea
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: 197aa    MW: 22382.8 Da    PI: 9.6155
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013628775.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF64.61e-20956148
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                    krie+ks rqvtf+kRrng++ KA  LSvLC+  vav+i+ss gk+y 
  XP_013628775.1  9 KRIEDKSSRQVTFCKRRNGLIEKARQLSVLCGSSVAVLIVSSIGKVYS 56
                    79********************************************95 PP
2K-box33.22.2e-12821641698
           K-box  16 slqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                      l+++ ++  + +e L++ qR+l   ++++++++ L +Le+q +++l+  R++K+el+++ ++  q+kek l++en+ L +++
  XP_013628775.1  82 DLTEKTQNYLSLNELLETVQRKLEAANVDNITVQSLISLEEQSKTALSLTRARKTELMMQLVKSFQEKEKLLRDENTVLASQM 164
                     4555566666678999999999*******************************************************999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006627.249161IPR002100Transcription factor, MADS-box
SMARTSM004321.3E-30160IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.24E-25173IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-21323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.2E-201056IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-212338IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-213859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.79380170IPR002487Transcription factor, K-box
PfamPF014868.2E-994164IPR002487Transcription 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: 197 aa     Download sequence    Send to blast
MGRRKVEIKR IEDKSSRQVT FCKRRNGLIE KARQLSVLCG SSVAVLIVSS IGKVYSSSSG  60
DSMAKILKHY EVQHADKLKT LDLTEKTQNY LSLNELLETV QRKLEAANVD NITVQSLISL  120
EEQSKTALSL TRARKTELMM QLVKSFQEKE KLLRDENTVL ASQMGKEKEF LETEDERAML  180
LEYSSGSNLR ETLPLLK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-15170169MEF2C
5f28_B3e-15170169MEF2C
5f28_C3e-15170169MEF2C
5f28_D3e-15170169MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in most plant tissues, roots, seedlings, leaves, stems, inflorescences, pollen, siliques and flowers. {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that prevents vernalization by short periods of cold. Acts as a floral repressor. {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:19139056, ECO:0000269|PubMed:20551443}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013628775.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Requires EARLY FLOWERING 7 (ELF7) and ELF8 to be expressed. Up-regulated by HUA2. {ECO:0000269|PubMed:15520273, ECO:0000269|PubMed:15659097}.
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_013628775.11e-139PREDICTED: protein MADS AFFECTING FLOWERING 5-like isoform X3
SwissprotQ9FPN79e-90AGL31_ARATH; Agamous-like MADS-box protein AGL31
TrEMBLA0A0D3BEW41e-136A0A0D3BEW4_BRAOL; Uncharacterized protein
STRINGBo3g100540.11e-136(Brassica oleracea)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65050.36e-82AGAMOUS-like 31
Publications ? help Back to Top
  1. Suter L,Rüegg M,Zemp N,Hennig L,Widmer A
    Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1928-42
    [PMID:25339407]