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_016456713.1
Organism
Nicotiana tabacum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family MIKC_MADS
Protein Properties Length: 212aa    MW: 24479.1 Da    PI: 9.4247
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_016456713.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.69.4e-30959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien + rqvtfskRr g+lKKA+ELSvLCdaeva+++fs++gklye+ss
  XP_016456713.1  9 KRIENATSRQVTFSKRRSGLLKKAFELSVLCDAEVALVVFSPKGKLYEFSS 59
                    79***********************************************96 PP
2K-box70.55.2e-24851741099
           K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                     + +++e+l++e+a + +++e L+ ++R+llG++L+s s+ eLqq+e+qLe+sl+ iR++Kn ll+eqi +l++ ek l ++n +Lrk++e
  XP_016456713.1  85 DIQTTEHLKEEVATMTRKLEFLEDSKRKLLGQGLDSSSFDELQQVEEQLERSLSCIRARKNLLLREQIAHLKEEEKILMKQNADLRKRIE 174
                     567899*********************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.8E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.567161IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-30323IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.7E-32374IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
CDDcd002659.23E-42374No hitNo description
PfamPF003196.9E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-303859IPR002100Transcription factor, MADS-box
PfamPF014861.3E-2287173IPR002487Transcription factor, K-box
PROSITE profilePS5129713.93489179IPR002487Transcription 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: 212 aa     Download sequence    Send to blast
MVRGKTELKR IENATSRQVT FSKRRSGLLK KAFELSVLCD AEVALVVFSP KGKLYEFSSS  60
STNKTIERYQ KNNKYLGLNI SKIADIQTTE HLKEEVATMT RKLEFLEDSK RKLLGQGLDS  120
SSFDELQQVE EQLERSLSCI RARKNLLLRE QIAHLKEEEK ILMKQNADLR KRIEVLPLSL  180
TIVPREEEDS QRQTMEIETE LSIGLPQRQS SH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-18173173MEF2C
5f28_B2e-18173173MEF2C
5f28_C2e-18173173MEF2C
5f28_D2e-18173173MEF2C
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
GenBankAC2441956e-68AC244195.1 Solanum lycopersicum strain Heinz 1706 chromosome 8 clone hba-6a9 map 8, complete sequence.
GenBankHG9754476e-68HG975447.1 Solanum pennellii chromosome ch08, complete genome.
GenBankHG9755206e-68HG975520.1 Solanum lycopersicum chromosome ch08, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016456713.11e-151PREDICTED: agamous-like MADS-box protein AGL19
SwissprotO827434e-69AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A1S3YX411e-150A0A1S3YX41_TOBAC; agamous-like MADS-box protein AGL19
STRINGXP_009607136.11e-149(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA4024625
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.12e-71AGAMOUS-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]