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_010519708.1
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: 200aa    MW: 22619.7 Da    PI: 6.9033
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010519708.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF756.1e-24959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krienks rqvtfskRr g+l KA  LSvLCda vav+++ss++kly +ss
  XP_010519708.1  9 KRIENKSSRQVTFSKRRGGLLEKARQLSVLCDAAVAVLVVSSSDKLYSFSS 59
                    79***********************************************96 PP
2K-box33.71.5e-12941623098
           K-box  30 nLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                      L++   +l+  +L++ s+  L+q+e qLe +l+  R++K++llle+++ l++ke++l+ee + L +++
  XP_010519708.1  94 LLETLESRLKEPNLGNVSIDFLNQMEWQLEGALSAARARKTQLLLESLKALKEKENSLREESQLLASQF 162
                     444445557777899************************************************999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.086161IPR002100Transcription factor, MADS-box
SMARTSM004323.4E-34160IPR002100Transcription factor, MADS-box
CDDcd002654.22E-32267No hitNo description
SuperFamilySSF554555.36E-26271IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-24323IPR002100Transcription factor, MADS-box
PfamPF003191.3E-221057IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-242338IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-243859IPR002100Transcription factor, MADS-box
PROSITE profilePS512979.31678173IPR002487Transcription factor, K-box
PfamPF014868.1E-995162IPR002487Transcription 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 FSKRRGGLLE KARQLSVLCD AAVAVLVVSS SDKLYSFSSG  60
ERILARYWEQ QAEEDVKDLD LRLESGNYLS TKELLETLES RLKEPNLGNV SIDFLNQMEW  120
QLEGALSAAR ARKTQLLLES LKALKEKENS LREESQLLAS QFGGEILVGA EAEKEKATPP  180
ENNISGEDRR RRPETLLLLT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-17169171MEF2 CHIMERA
6byy_B1e-17169171MEF2 CHIMERA
6byy_C1e-17169171MEF2 CHIMERA
6byy_D1e-17169171MEF2 CHIMERA
6bz1_A1e-17169171MEF2 CHIMERA
6bz1_B1e-17169171MEF2 CHIMERA
6bz1_C1e-17169171MEF2 CHIMERA
6bz1_D1e-17169171MEF2 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_010519708.1
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_010519708.11e-139PREDICTED: agamous-like MADS-box protein AGL27 isoform X3
SwissprotQ9LSR75e-59AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLA0A087GE891e-64A0A087GE89_ARAAL; Uncharacterized protein
STRINGXP_010519690.11e-137(Tarenaya hassleriana)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77080.43e-35MIKC_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]