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 Sopim04g076680.0.1
Organism
Solanum pimpinellifolium
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; Lycopersicon
Family M-type_MADS
Protein Properties Length: 64aa    MW: 7049.23 Da    PI: 11.0271
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopim04g076680.0.1genomeCSHLView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF92.32.4e-291059251
                        ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        ri+n++ rqvtfskRrng+lKKA+EL +LCdae+ viifsstgklyeys+
  Sopim04g076680.0.1 10 RIDNSTSRQVTFSKRRNGLLKKAKELAILCDAEAGVIIFSSTGKLYEYSN 59
                        8***********************************************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.3E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.964161IPR002100Transcription factor, MADS-box
CDDcd002652.44E-35261No hitNo description
SuperFamilySSF554551.7E-28261IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-29323IPR002100Transcription factor, MADS-box
PfamPF003192.3E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-293859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 64 aa     Download sequence    Send to blast
MGRGKIVIRR IDNSTSRQVT FSKRRNGLLK KAKELAILCD AEAGVIIFSS TGKLYEYSNT  60
SKK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-19161161MEF2C
5f28_B3e-19161161MEF2C
5f28_C3e-19161161MEF2C
5f28_D3e-19161161MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754434e-97HG975443.1 Solanum pennellii chromosome ch04, complete genome.
GenBankHG9755164e-97HG975516.1 Solanum lycopersicum chromosome ch04, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015073942.12e-36MADS-box transcription factor 23-like isoform X1
RefseqXP_025886615.12e-36MADS-box transcription factor 23 isoform X1
RefseqXP_025886616.12e-36MADS-box transcription factor 23 isoform X1
RefseqXP_027772034.12e-36MADS-box transcription factor 23-like isoform X1
RefseqXP_027772037.11e-37MADS-box transcription factor 27-like isoform X5
SwissprotQ6EP499e-34MAD27_ORYSJ; MADS-box transcription factor 27
TrEMBLM1AJM83e-36M1AJM8_SOLTU; Uncharacterized protein
STRINGSolyc04g076680.2.19e-38(Solanum lycopersicum)
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
AT2G14210.17e-35AGAMOUS-like 44
Publications ? help Back to Top
  1. Puig J, et al.
    Analysis of the expression of the AGL17-like clade of MADS-box transcription factors in rice.
    Gene Expr. Patterns, 2013 Jun-Jul. 13(5-6): p. 160-70
    [PMID:23466806]
  2. Yu C, et al.
    The effects of fluctuations in the nutrient supply on the expression of five members of the AGL17 clade of MADS-box genes in rice.
    PLoS ONE, 2014. 9(8): p. e105597
    [PMID:25140876]