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 PGSC0003DMP400049311
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family MIKC_MADS
Protein Properties Length: 229aa    MW: 26257.5 Da    PI: 8.0915
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400049311genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.11.7e-31959151
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          krienk+nrqvtf+kRrng+lKKA+ELSvLCdae+a+iifss+gklye++s
  PGSC0003DMP400049311  9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEIALIIFSSRGKLYEFCS 59
                          79***********************************************96 PP
2K-box88.11.7e-2980160687
                 K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekel 87 
                           g+ +++ ++++ +qe+ kLk+++e Lq++qRhllGedL++L  k+L+qLe+qL++sl++iRs+K++++l+q+ elq+k +el
  PGSC0003DMP400049311  80 GT-QTSPDSQNNYQEYLKLKARVEVLQQSQRHLLGEDLGQLGTKDLEQLERQLDSSLRQIRSTKTQHILDQLAELQQKLEEL 160
                           44.567789*********************************************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.7E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.599161IPR002100Transcription factor, MADS-box
CDDcd002652.61E-45278No hitNo description
SuperFamilySSF554559.81E-34284IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004043.8E-33323IPR002100Transcription factor, MADS-box
PfamPF003193.7E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004043.8E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004043.8E-333859IPR002100Transcription factor, MADS-box
PfamPF014862.0E-2484160IPR002487Transcription factor, K-box
PROSITE profilePS5129713.35987174IPR002487Transcription 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: 229 aa     Download sequence    Send to blast
MGRGKVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEIALIIFSS RGKLYEFCSN  60
SSISKTLERY HRYNYGTLEG TQTSPDSQNN YQEYLKLKAR VEVLQQSQRH LLGEDLGQLG  120
TKDLEQLERQ LDSSLRQIRS TKTQHILDQL AELQQKLEEL GVAFQTSWHS GEQSVQYRHE  180
QPSQHEGFFQ HVNCNNTMPI SYRYDNVQPE NAAPSTHDAA GVVPGWML*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-22174173MEF2C
5f28_B3e-22174173MEF2C
5f28_C3e-22174173MEF2C
5f28_D3e-22174173MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable MADS-box transcription factor that functions with J2 and EJ2 in meristem maturation. {ECO:0000269|PubMed:28528644}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400049311
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4485220.0AF448522.1 Lycopersicon esculentum MADS-box transcription factor MADS-RIN (MADS-RIN) mRNA, complete cds.
GenBankAF4485230.0AF448523.1 Lycopersicon esculentum MADS-box transcription factor MADS-rin mRNA, complete cds.
GenBankDQ1577950.0DQ157795.1 Lycopersicon esculentum cultivar Pusa Ruby MADS-box transcription factor MADS-RIN mRNA, complete cds.
GenBankDQ1577960.0DQ157796.1 Lycopersicon esculentum cultivar Punjab Kesari MADS-box transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015075017.11e-162MADS-box protein 04g005320 isoform X1
SwissprotK4BND81e-112MADS4_SOLLC; MADS-box protein 04g005320
TrEMBLM1CR511e-169M1CR51_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000728911e-167(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G03710.24e-77MIKC_MADS family protein
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  3. Soyk S, et al.
    Bypassing Negative Epistasis on Yield in Tomato Imposed by a Domestication Gene.
    Cell, 2017. 169(6): p. 1142-1155.e12
    [PMID:28528644]