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_009150583.1
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: 200aa    MW: 22752.3 Da    PI: 9.6155
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009150583.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF694.4e-22956148
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                    krienks rqvtf+kRrng++ KA  LSvLC+  vav+i+sstgk+y 
  XP_009150583.1  9 KRIENKSSRQVTFCKRRNGLIEKARQLSVLCGSSVAVLIVSSTGKVYS 56
                    79********************************************96 PP
2K-box37.31.2e-138316617100
           K-box  17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                     l+++ ++  + +e L++ qR++   +++++s++ L  Le+q +++l+  R++K+el+++ ++ lq+kek l++en+ L ++l+e
  XP_009150583.1  83 LTEKTQNYVSLNELLETVQRKIEAANVDNISVQSLIFLEEQFKTALSLTRARKTELMMQLVKSLQEKEKLLRDENTVLASQLAE 166
                     555555666678999999999**********************************************************99976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.0E-32160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006627.978161IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.37E-26173IPR002100Transcription factor, MADS-box
CDDcd002653.94E-31271No hitNo description
PRINTSPR004041.2E-22323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003196.1E-221056IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-222338IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-223859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.17380170IPR002487Transcription factor, K-box
PfamPF014866.4E-1094164IPR002487Transcription 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: 200 aa     Download sequence    Send to blast
MGRRKVEIKR IENKSSRQVT FCKRRNGLIE KARQLSVLCG SSVAVLIVSS TGKVYSSSSG  60
DSMAKILKHY EVQHADKLKT LDLTEKTQNY VSLNELLETV QRKIEAANVD NISVQSLIFL  120
EEQFKTALSL TRARKTELMM QLVKSLQEKE KLLRDENTVL ASQLAEMGKE KEFLETEDER  180
AMLLEYSSGN NPRETLPLLK
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 -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.277440.0leaf
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_009150583.1
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_009150583.11e-142PREDICTED: protein MADS AFFECTING FLOWERING 5-like isoform X2
RefseqXP_013643101.11e-142protein MADS AFFECTING FLOWERING 5-like isoform X4
SwissprotQ9FPN73e-89AGL31_ARATH; Agamous-like MADS-box protein AGL31
TrEMBLM4E6E71e-141M4E6E7_BRARP; Uncharacterized protein
STRINGBra024351.1-P1e-142(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65070.12e-84MIKC_MADS family protein
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]