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 Sopim05g012020.0.1
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 MIKC_MADS
Protein Properties Length: 243aa    MW: 27968.4 Da    PI: 8.0049
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopim05g012020.0.1genomeCSHLView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF983.9e-31959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krienk+nrqvtf+kRrng+lKKA+ELS+LCdae+a+iifss+gklye++s
  Sopim05g012020.0.1  9 KRIENKINRQVTFAKRRNGLLKKAYELSILCDAEIALIIFSSRGKLYEFCS 59
                        79***********************************************96 PP
2K-box95.77.2e-32791735100
               K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLr 95 
                         +g+ ++++++++ +qe+ kLk ++e+Lq++qRhllGedL++L  k+L+qLe+qL++sl++iRs+K++++l+q+ elq+ke++l e nk+Lr
  Sopim05g012020.0.1  79 EGT-QTSSDSQNNYQEYLKLKTRVEMLQQSQRHLLGEDLGQLGTKDLEQLERQLDSSLRQIRSTKTQHILDQLAELQQKEQSLTEMNKSLR 168
                         455.578889********************************************************************************* PP

               K-box  96 kklee 100
                          klee
  Sopim05g012020.0.1 169 IKLEE 173
                         *9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.417161IPR002100Transcription factor, MADS-box
SMARTSM004329.2E-42160IPR002100Transcription factor, MADS-box
CDDcd002652.22E-45278No hitNo description
SuperFamilySSF554556.93E-34284IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004046.2E-33323IPR002100Transcription factor, MADS-box
PfamPF003194.4E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004046.2E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004046.2E-333859IPR002100Transcription factor, MADS-box
PfamPF014864.3E-2782171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.13487177IPR002487Transcription factor, K-box
Gene3DG3DSA:3.10.150.105.9E-5151217No hitNo description
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: 243 aa     Download sequence    Send to blast
MGRGKVELKR IENKINRQVT FAKRRNGLLK KAYELSILCD AEIALIIFSS RGKLYEFCSN  60
SSMSKTLERY HRYNYGTLEG TQTSSDSQNN YQEYLKLKTR VEMLQQSQRH LLGEDLGQLG  120
TKDLEQLERQ LDSSLRQIRS TKTQHILDQL AELQQKEQSL TEMNKSLRIK LEELGVTFQT  180
SWHCGEQSVQ YRHEQPSHHE GFFQHVNCNN TLPISYGYDN VQPENAAPST HDATGVVPGW  240
ML*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A7e-289217122101Developmental protein SEPALLATA 3
4ox0_B7e-289217122101Developmental protein SEPALLATA 3
4ox0_C7e-289217122101Developmental protein SEPALLATA 3
4ox0_D7e-289217122101Developmental protein SEPALLATA 3
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}.
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.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001234670.10.0MADS-box transcription factor RIN isoform 1
SwissprotK4BND81e-121MADS4_SOLLC; MADS-box protein 04g005320
TrEMBLQ8S4L41e-180Q8S4L4_SOLLC; MADS-box transcription factor
STRINGSolyc05g012020.2.10.0(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
AT3G02310.13e-92MIKC_MADS family protein
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. 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]