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 AA57G00492
Organism
Aethionema arabicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Aethionemeae; Aethionema
Family MIKC_MADS
Protein Properties Length: 162aa    MW: 18341.1 Da    PI: 10.1054
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AA57G00492genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF91.15.4e-29959151
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                krie  + rqvtfskRrng+lKKA+ELSvLCdaeva+iifs+t klye+s+
  AA57G00492  9 KRIEKATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPTAKLYEFST 59
                79***********************************************96 PP
2K-box71.72.2e-24591233498
       K-box  34 eqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                 + R+llGe++e++s+ eLqqLe+qL++sl+kiR+kK++ll+eqie+l+ +e+el  enk+Lrk++
  AA57G00492  59 TSRKLLGEGIETCSIVELQQLENQLDRSLTKIRTKKYQLLREQIEKLKAQERELTAENKELRKQY 123
                 67************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.2E-38160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.628161IPR002100Transcription factor, MADS-box
SuperFamilySSF554554.84E-28361IPR002100Transcription factor, MADS-box
CDDcd002654.39E-35360No hitNo description
PRINTSPR004045.9E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003195.1E-261057IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.89912129IPR002487Transcription factor, K-box
PRINTSPR004045.9E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-293859IPR002100Transcription factor, MADS-box
PfamPF014864.7E-2159122IPR002487Transcription 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: 162 aa     Download sequence    Send to blast
MVRGKTEMKR IEKATSRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFSP TAKLYEFSTS  60
RKLLGEGIET CSIVELQQLE NQLDRSLTKI RTKKYQLLRE QIEKLKAQER ELTAENKELR  120
KQYGMGGTRS SSSSPSSLSS SEVNINGINM EVETALFIGW TS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A7e-17160160MEF2C
5f28_B7e-17160160MEF2C
5f28_C7e-17160160MEF2C
5f28_D7e-17160160MEF2C
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAA57G00492
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
GenBankAK2304642e-42AK230464.1 Arabidopsis thaliana mRNA for MADS-box protein AGL14, complete cds, clone: RAFL26-03-G06.
GenBankAL0786062e-42AL078606.1 Arabidopsis thaliana DNA chromosome 4, BAC clone T26M18 (ESSA project).
GenBankAL1615322e-42AL161532.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 32.
GenBankAL1615332e-42AL161533.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 33.
GenBankCP0026872e-42CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001320037.12e-67AGAMOUS-like 19
RefseqNP_194026.12e-67AGAMOUS-like 19
SwissprotO827432e-68AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A178V3F35e-66A0A178V3F3_ARATH; GL19
TrEMBLM4EKV72e-66M4EKV7_BRARP; Uncharacterized protein
STRINGAT4G22950.18e-67(Arabidopsis thaliana)
STRINGBra029424.1-P3e-67(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.11e-69AGAMOUS-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]