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_010547620.1
Organism
Tarenaya hassleriana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya
Family MIKC_MADS
Protein Properties Length: 199aa    MW: 22385.5 Da    PI: 8.464
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010547620.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF72.53.5e-23959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krienks rqvtfskRr+g+  KA  LSvLCda vav+++ss+gk y +ss
  XP_010547620.1  9 KRIENKSSRQVTFSKRRTGLVEKARQLSVLCDAAVAVLVVSSSGKHYSFSS 59
                    79***********************************************96 PP
2K-box35.93.2e-131011633597
           K-box  35 qRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                     + +l   +L++ ++  L q+e+qLe +l+  R++K++l++e+++  + kek+l+ en++L  +
  XP_010547620.1 101 NSQLEEPNLGNVNIDFLIQMEHQLEVALSVARARKTQLMMESLKAFKGKEKSLRVENQRLAGQ 163
                     555555689999**********************************************99866 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006628.777161IPR002100Transcription factor, MADS-box
SMARTSM004322.2E-33160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.75E-26275IPR002100Transcription factor, MADS-box
PRINTSPR004049.1E-24323IPR002100Transcription factor, MADS-box
PfamPF003191.8E-221057IPR002100Transcription factor, MADS-box
PRINTSPR004049.1E-242338IPR002100Transcription factor, MADS-box
PRINTSPR004049.1E-243859IPR002100Transcription factor, MADS-box
PROSITE profilePS512979.80380175IPR002487Transcription factor, K-box
PfamPF014861.1E-996163IPR002487Transcription 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: 199 aa     Download sequence    Send to blast
MGRKKMEIKR IENKSSRQVT FSKRRTGLVE KARQLSVLCD AAVAVLVVSS SGKHYSFSSG  60
DSLTRILGLY REKQADEDLK ALDRLESGNY LSHKELLEIV NSQLEEPNLG NVNIDFLIQM  120
EHQLEVALSV ARARKTQLMM ESLKAFKGKE KSLRVENQRL AGQFGGPILV EEEADKATTS  180
ENNSGEEHQQ PQETLRLLT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-16172171MEF2C
5f28_B5e-16172171MEF2C
5f28_C5e-16172171MEF2C
5f28_D5e-16172171MEF2C
6byy_A4e-16172171MEF2 CHIMERA
6byy_B4e-16172171MEF2 CHIMERA
6byy_C4e-16172171MEF2 CHIMERA
6byy_D4e-16172171MEF2 CHIMERA
6bz1_A5e-16172171MEF2 CHIMERA
6bz1_B5e-16172171MEF2 CHIMERA
6bz1_C5e-16172171MEF2 CHIMERA
6bz1_D5e-16172171MEF2 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
PlantRegMapXP_010547620.1
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_010547620.11e-143PREDICTED: agamous-like MADS-box protein AGL27
SwissprotQ9LSR74e-68AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLA0A087GE891e-70A0A087GE89_ARAAL; Uncharacterized protein
STRINGXP_010547620.11e-142(Tarenaya hassleriana)
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
AT5G65060.13e-52MIKC_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]