PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID 476870
Common NameARALYDRAFT_476870
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family MIKC_MADS
Protein Properties Length: 193aa    MW: 21574.8 Da    PI: 5.0529
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
476870genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF69.62.9e-22957149
            S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
  SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
            krienks rqvtfskRrng++ KA  LS+LC+  vav+++s +gklye 
  476870  9 KRIENKSSRQVTFSKRRNGLIDKARQLSILCESSVAVVVVSASGKLYES 57
            79*********************************************95 PP
2K-box33.12.4e-12951603398
   K-box  33 reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
             + q +l   ++++  +  L +Le+qLe++l+  R++K el++e ++ l++ke  l+een+ L +++
  476870  95 TVQSKLEEPNVDNVRVDSLISLEEQLETALSVSRARKAELMMEYVKSLKEKEMLLREENQVLASQM 160
             555555556677888999*******************************************99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.3E-33160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.62E-24164IPR002100Transcription factor, MADS-box
PROSITE profilePS5006628.413161IPR002100Transcription factor, MADS-box
PRINTSPR004047.0E-24323IPR002100Transcription factor, MADS-box
PfamPF003191.3E-211056IPR002100Transcription factor, MADS-box
PRINTSPR004047.0E-242338IPR002100Transcription factor, MADS-box
PRINTSPR004047.0E-243859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.17676166IPR002487Transcription factor, K-box
PfamPF014866.2E-1092160IPR002487Transcription 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: 193 aa     Download sequence    Send to blast
MGRRKIEIKR IENKSSRQVT FSKRRNGLID KARQLSILCE SSVAVVVVSA SGKLYESSSG  60
DEIEALVKPE ITQCFELDLA EKIQNYLPHK ELLETVQSKL EEPNVDNVRV DSLISLEEQL  120
ETALSVSRAR KAELMMEYVK SLKEKEMLLR EENQVLASQM GKNTLLAIED EGGMLPESSS  180
GNKIPETLPL LK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A9e-16168168MEF2 CHIMERA
6byy_B9e-16168168MEF2 CHIMERA
6byy_C9e-16168168MEF2 CHIMERA
6byy_D9e-16168168MEF2 CHIMERA
6bz1_A9e-16168168MEF2 CHIMERA
6bz1_B9e-16168168MEF2 CHIMERA
6bz1_C9e-16168168MEF2 CHIMERA
6bz1_D9e-16168168MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering time in both long and short days, probably through the photoperiodic and vernalization pathways. Prevents premature flowering. {ECO:0000269|PubMed:11351076, ECO:0000269|PubMed:14558654, ECO:0000269|PubMed:15695584, ECO:0000269|PubMed:18799658}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap476870
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly repressed by vernalization. Negatively regulated at the chromatin level by VIL1 through the photoperiod and vernalization pathways. Requires EARLY FLOWERING 7 (ELF7) and ELF8 to be expressed. Up-regulated by HUA2. {ECO:0000269|PubMed:11351076, ECO:0000269|PubMed:15520273, ECO:0000269|PubMed:15659097, ECO:0000269|PubMed:17114575}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3126660.0AF312666.1 Arabidopsis thaliana MADS-box protein AGL27-II (AGL27) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002887668.11e-134agamous-like MADS-box protein AGL27 isoform X2
SwissprotQ9AT761e-104AGL27_ARATH; Agamous-like MADS-box protein AGL27
TrEMBLD7KU021e-133D7KU02_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.2__2000__AT1G77080.21e-134(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM9861987
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77080.21e-115MIKC_MADS family protein
Publications ? help Back to Top
  1. Hwan Lee J,Sook Chung K,Kim SK,Ahn JH
    Post-translational regulation of SHORT VEGETATIVE PHASE as a major mechanism for thermoregulation of flowering.
    Plant Signal Behav, 2014. 9(4): p. e28193
    [PMID:25764420]
  2. Luo M, et al.
    Regulation of flowering time by the histone deacetylase HDA5 in Arabidopsis.
    Plant J., 2015. 82(6): p. 925-36
    [PMID:25922987]
  3. Sureshkumar S,Dent C,Seleznev A,Tasset C,Balasubramanian S
    Nonsense-mediated mRNA decay modulates FLM-dependent thermosensory flowering response in Arabidopsis.
    Nat Plants, 2016. 2(5): p. 16055
    [PMID:27243649]
  4. Lutz U, et al.
    Natural haplotypes of FLM non-coding sequences fine-tune flowering time in ambient spring temperatures in Arabidopsis.
    Elife, 2018.
    [PMID:28294941]
  5. Capovilla G,Symeonidi E,Wu R,Schmid M
    Contribution of major FLM isoforms to temperature-dependent flowering in Arabidopsis thaliana.
    J. Exp. Bot., 2017. 68(18): p. 5117-5127
    [PMID:29036339]
  6. Ahn CS,Lee DH,Pai HS
    Characterization of Maf1 in Arabidopsis: function under stress conditions and regulation by the TOR signaling pathway.
    Planta, 2019. 249(2): p. 527-542
    [PMID:30293201]