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 Tp2g28130
Organism
Thellungiella parvula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella
Family MIKC_MADS
Protein Properties Length: 177aa    MW: 19770.8 Da    PI: 10.4472
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp2g28130genomethellungiellaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF67.91e-21956148
               S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
     SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
               krienks rqvtfskRrng++ KA  LS+LC+  vav+++s++gkly 
  Tp2g28130  9 KRIENKSSRQVTFSKRRNGLIEKARQLSILCESSVAVLVVSTSGKLYN 56
               79********************************************97 PP
2K-box32.43.9e-12781453198
      K-box  31 LqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                L++ + +l   ++++ s+  L +L +qLe++l+  R++K+el +e +++lq+kek l+een  L +++
  Tp2g28130  78 LESVKSNLEEANVDNVSVDSLISLGEQLETALSITRARKTELRMECVKTLQEKEKLLREENLVLATQI 145
                5555566666788999*********************************************9999887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006628.076161IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.5E-24172IPR002100Transcription factor, MADS-box
SMARTSM004324.8E-31160IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-23323IPR002100Transcription factor, MADS-box
PfamPF003192.9E-211055IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-232338IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-233859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.00161151IPR002487Transcription factor, K-box
PfamPF014861.5E-878145IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009910Biological Processnegative regulation of flower development
GO:0010048Biological Processvernalization response
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: 177 aa     Download sequence    Send to blast
MGRRKVEIKR IENKSSRQVT FSKRRNGLIE KARQLSILCE SSVAVLVVST SGKLYNSSSG  60
DKILRKKTRN YLPHKELLES VKSNLEEANV DNVSVDSLIS LGEQLETALS ITRARKTELR  120
MECVKTLQEK EKLLREENLV LATQIGKTTF LVTEGEGRTS PANSSGNKPP ETLSLLK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-17182189MEF2 CHIMERA
6byy_B1e-17182189MEF2 CHIMERA
6byy_C1e-17182189MEF2 CHIMERA
6byy_D1e-17182189MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering time, probably through the photoperiodic and vernalization pathways; more efficient in cv. Landsberg erecta than in cv. Columbia background. Prevents premature flowering (PubMed:12724541, PubMed:25339407). Involved in the modulation of vernalization impact on flowering according to genotype acclimation to altitude (PubMed:25339407). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:25339407}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp2g28130
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed during vernalization (PubMed:12724541). Regulated by HAM1 and HAM2 via epigenetic modification of chromatins at H4K5 acetylation during flowering (PubMed:23273925). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:23273925}.
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_024007051.12e-92LOW QUALITY PROTEIN: agamous-like MADS-box protein AGL27
SwissprotQ9LSR72e-86AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLE4MW807e-91E4MW80_EUTHA; mRNA, clone: RTFL01-07-K22
STRINGA0A087GE892e-87(Arabis alpina)
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
AT5G65060.16e-89MIKC_MADS family protein
Publications ? help Back to Top
  1. Conte MG,Gaillard S,Droc G,Perin C
    Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants.
    BMC Genomics, 2008. 9: p. 183
    [PMID:18426584]
  2. 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]
  3. Nasim Z,Fahim M,Ahn JH
    Possible Role of MADS AFFECTING FLOWERING 3 and B-BOX DOMAIN PROTEIN 19 in Flowering Time Regulation of Arabidopsis Mutants with Defects in Nonsense-Mediated mRNA Decay.
    Front Plant Sci, 2017. 8: p. 191
    [PMID:28261246]