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 Niben101Scf00490g01044.1
Organism
Nicotiana benthamiana
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: 24717.5 Da    PI: 9.5356
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf00490g01044.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.74e-30959151
                              S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                    SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                              krien + rqvtfskRr g+lKKA+ELSvLCdaeva+i+fs++gklye+ss
  Niben101Scf00490g01044.1  9 KRIENATSRQVTFSKRRSGLLKKAFELSVLCDAEVALIVFSPKGKLYEFSS 59
                              79***********************************************96 PP
2K-box70.94e-24851741099
                     K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                               + +++e+l++e+a + +++e L+ ++R+llGe+L+s s+ eLqq+e+qLe+sl+ iR++Kn l++eqi +l++ ek l ++n +L
  Niben101Scf00490g01044.1  85 DIQTTEHLKEEVATMTRKLEFLEDSKRKLLGEGLDSSSYDELQQVEKQLERSLSCIRARKNLLFREQIAHLKEEEKILMKQNADL 169
                               567899******************************************************************************* PP

                     K-box  95 rkkle 99 
                               +k++e
  Niben101Scf00490g01044.1 170 KKRYE 174
                               99875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.721161IPR002100Transcription factor, MADS-box
SMARTSM004324.7E-41160IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-30323IPR002100Transcription factor, MADS-box
CDDcd002651.14E-42372No hitNo description
SuperFamilySSF554551.1E-32373IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003196.2E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-303859IPR002100Transcription factor, MADS-box
PfamPF014868.4E-2387173IPR002487Transcription factor, K-box
PROSITE profilePS5129713.80289179IPR002487Transcription 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
MVRGKTEMKR IENATSRQVT FSKRRSGLLK KAFELSVLCD AEVALIVFSP KGKLYEFSSS  60
STNKTIERYQ KNDKYLGLNI SKIADIQTTE HLKEEVATMT RKLEFLEDSK RKLLGEGLDS  120
SSYDELQQVE KQLERSLSCI RARKNLLFRE QIAHLKEEEK ILMKQNADLK KRYEVLPLLM  180
TTVPQEKEDT ERQTMEVETE LFIGLPQRQR SH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-18169169MEF2C
5f28_B5e-18169169MEF2C
5f28_C5e-18169169MEF2C
5f28_D5e-18169169MEF2C
6byy_A5e-18169169MEF2 CHIMERA
6byy_B5e-18169169MEF2 CHIMERA
6byy_C5e-18169169MEF2 CHIMERA
6byy_D5e-18169169MEF2 CHIMERA
6bz1_A5e-18169169MEF2 CHIMERA
6bz1_B5e-18169169MEF2 CHIMERA
6bz1_C5e-18169169MEF2 CHIMERA
6bz1_D5e-18169169MEF2 CHIMERA
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009777750.11e-146PREDICTED: agamous-like MADS-box protein AGL19 isoform X1
RefseqXP_016453350.11e-146PREDICTED: agamous-like MADS-box protein AGL19
SwissprotO827436e-73AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A1S3YN411e-145A0A1S3YN41_TOBAC; agamous-like MADS-box protein AGL19
TrEMBLA0A1U7WU421e-145A0A1U7WU42_NICSY; agamous-like MADS-box protein AGL19 isoform X1
STRINGXP_009777750.11e-146(Nicotiana sylvestris)
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
AT4G22950.13e-75AGAMOUS-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]