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 Sopim01g106170.0.1
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: 149aa    MW: 17001.1 Da    PI: 10.9752
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopim01g106170.0.1genomeCSHLView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.51.8e-2870118250
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
              SRF-TF   2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50 
                         ri+n++ rqvtfskRrng+lKKA+EL +LCda+v +iifsstgklye++
  Sopim01g106170.0.1  70 RIDNTTSRQVTFSKRRNGLLKKAKELAILCDAQVGLIIFSSTGKLYEFA 118
                         9***********************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.37161121IPR002100Transcription factor, MADS-box
SMARTSM004322.8E-3961120IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.09E-3262141IPR002100Transcription factor, MADS-box
CDDcd002653.73E-4262134No hitNo description
PROSITE patternPS00350063117IPR002100Transcription factor, MADS-box
PRINTSPR004049.7E-296383IPR002100Transcription factor, MADS-box
PfamPF003191.1E-2570117IPR002100Transcription factor, MADS-box
PRINTSPR004049.7E-298398IPR002100Transcription factor, MADS-box
PRINTSPR004049.7E-2998119IPR002100Transcription 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: 149 aa     Download sequence    Send to blast
MIFLDRCPRV RLLWCTRASR GSKISDYFFT KPIFLLSLSL SICRISLLSK SLKLSRLIKE  60
MGRGKIVIQR IDNTTSRQVT FSKRRNGLLK KAKELAILCD AQVGLIIFSS TGKLYEFANN  120
SMKSTIDRYN KIKEENNNMN PMSEVKVT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-1961134174MEF2C
5f28_B6e-1961134174MEF2C
5f28_C6e-1961134174MEF2C
5f28_D6e-1961134174MEF2C
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
GenBankAC2392381e-107AC239238.8 Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-156i17 map 1, complete sequence.
GenBankHG9754401e-107HG975440.1 Solanum pennellii chromosome ch01, complete genome.
GenBankHG9755131e-107HG975513.1 Solanum lycopersicum chromosome ch01, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019067399.12e-55MADS-box transcription factor 23-like
RefseqXP_027769750.11e-55MADS-box transcription factor 23
SwissprotQ9SZJ63e-42AGL21_ARATH; Agamous-like MADS-box protein AGL21
TrEMBLA0A3Q7ERK57e-61A0A3Q7ERK5_SOLLC; Uncharacterized protein
STRINGSolyc01g106170.2.11e-102(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
AT4G37940.11e-44AGAMOUS-like 21
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. Yu LH, et al.
    Arabidopsis MADS-Box Transcription Factor AGL21 Acts as Environmental Surveillance of Seed Germination by Regulating ABI5 Expression.
    Mol Plant, 2017. 10(6): p. 834-845
    [PMID:28438576]
  3. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]
  4. Sun CH, et al.
    Chrysanthemum MADS-box transcription factor CmANR1 modulates lateral root development via homo-/heterodimerization to influence auxin accumulation in Arabidopsis.
    Plant Sci., 2018. 266: p. 27-36
    [PMID:29241564]