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 AHYPO_015757-RA
Organism
Amaranthus hypochondriacus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Amaranthaceae; Amaranthus
Family MIKC_MADS
Protein Properties Length: 177aa    MW: 20270.3 Da    PI: 8.4582
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AHYPO_015757-RAgenomeBYUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.23.3e-31959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien+s rqvtfskRrng+lKKA+ELSvLCdaeva+iifs+tgklye++s
  AHYPO_015757-RA  9 KRIENDSSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPTGKLYEFAS 59
                     79***********************************************86 PP
2K-box67.73.8e-23591421699
            K-box  16 slqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      s++++++ L+k+i+nL+ ++R+llG++L+ +s+ eLq+Le+qL+ksl++iR++Kn l++eq+++l  +ek l +en +L++kle
  AHYPO_015757-RA  59 SSREDANELEKRIKNLELSKRKLLGDGLDGCSIDELQELEKQLDKSLSNIRARKNALYREQLDKLYDQEKLLLKENARLKEKLE 142
                      678999***************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004327.5E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.777161IPR002100Transcription factor, MADS-box
PRINTSPR004049.0E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
CDDcd002653.27E-37360No hitNo description
SuperFamilySSF554552.75E-30374IPR002100Transcription factor, MADS-box
PfamPF003193.0E-281057IPR002100Transcription factor, MADS-box
PRINTSPR004049.0E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004049.0E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129713.69557147IPR002487Transcription factor, K-box
PfamPF014862.4E-2261141IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010048Biological Processvernalization response
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
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
MVRGKTQMKR IENDSSRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFSP TGKLYEFASS  60
REDANELEKR IKNLELSKRK LLGDGLDGCS IDELQELEKQ LDKSLSNIRA RKNALYREQL  120
DKLYDQEKLL LKENARLKEK LEMCSAAPLI DQQKGMQDVE TELFIGLPES RNTQFN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-19163163MEF2C
5f28_B3e-19163163MEF2C
5f28_C3e-19163163MEF2C
5f28_D3e-19163163MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner. {ECO:0000269|PubMed:16778081}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Maintained at very low levels by the polycomb-group (PcG) proteins MSI1, CLF, and EMF2 via histone methylation (H3K27me3). Derepressed upon cold treatment (vernalization). {ECO:0000269|PubMed:16778081}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFR8461403e-51FR846140.1 Gerbera hybrid cultivar partial mRNA for GSOC2 protein (gsoc2 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021754068.13e-93MADS-box protein SOC1-like isoform X1
SwissprotO827436e-62AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A0K9RXL23e-86A0A0K9RXL2_SPIOL; Uncharacterized protein
STRINGXP_010676581.12e-84(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.13e-64AGAMOUS-like 19
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  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]