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 Sobic.006G189500.1.p
Common NameSb06g026300, SORBIDRAFT_06g026300
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family MIKC_MADS
Protein Properties Length: 236aa    MW: 26618.2 Da    PI: 9.1963
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G189500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF1009.5e-32958150
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                          krienk+nrqvtfskRrng+lKKA+ELSvLCdaeva+i+fss+gklye+ 
  Sobic.006G189500.1.p  9 KRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIVFSSRGKLYEFG 58
                          79**********************************************95 PP
2K-box101.41.3e-33851721299
                 K-box  12 akaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                            + ++++qe+++ k+++e+Lqr+qRh+lGedL++Ls+keLqqLe+qLe+sl++ R +K+++++eq++el++ke++l+e nk+L++kle
  Sobic.006G189500.1.p  85 GEPQNWYQEMSRFKDKLESLQRSQRHMLGEDLGPLSIKELQQLEKQLEDSLSQARHRKTQMMMEQMDELRRKERQLDELNKKLKNKLE 172
                           4679**********************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.529161IPR002100Transcription factor, MADS-box
SMARTSM004321.6E-41160IPR002100Transcription factor, MADS-box
CDDcd002652.74E-45278No hitNo description
SuperFamilySSF554552.88E-33277IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.9E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-333859IPR002100Transcription factor, MADS-box
PfamPF014862.2E-3086171IPR002487Transcription factor, K-box
PROSITE profilePS5129717.39987177IPR002487Transcription 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: 236 aa     Download sequence    Send to blast
MGRGRVELKR IENKINRQVT FSKRRNGLLK KAYELSVLCD AEVALIVFSS RGKLYEFGSA  60
GVNKTLEKYH NCCHNAQDSN TSFGGEPQNW YQEMSRFKDK LESLQRSQRH MLGEDLGPLS  120
IKELQQLEKQ LEDSLSQARH RKTQMMMEQM DELRRKERQL DELNKKLKNK LEAEGCSNYR  180
GVQTSWATDA AITSDSGALS TPNAEPPAAA VDCEPTLQIG FVAAEAAAKP RRSKH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-22169169MEF2C
5f28_B3e-22169169MEF2C
5f28_C3e-22169169MEF2C
5f28_D3e-22169169MEF2C
6byy_A2e-22169169MEF2 CHIMERA
6byy_B2e-22169169MEF2 CHIMERA
6byy_C2e-22169169MEF2 CHIMERA
6byy_D2e-22169169MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.135944e-61ovary| panicle
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the floral meristem, lodicule, palea, lemma, receptacle, empty glume, stamen, pistil, and ovule. {ECO:0000269|PubMed:19820190}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Plays minor but redundant roles with MADS6 in floral development. {ECO:0000269|PubMed:19820190}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G189500.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021318119.11e-177MADS-box transcription factor 17
SwissprotQ7XUN21e-117MAD17_ORYSJ; MADS-box transcription factor 17
TrEMBLA0A1B6PMU41e-175A0A1B6PMU4_SORBI; Uncharacterized protein
STRINGSb06g026300.11e-167(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP41873566
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45650.13e-80AGAMOUS-like 6
Publications ? help Back to Top
  1. Duan Y, et al.
    Characterization of Osmads6-5, a null allele, reveals that OsMADS6 is a critical regulator for early flower development in rice (Oryza sativa L.).
    Plant Mol. Biol., 2012. 80(4-5): p. 429-42
    [PMID:22933119]
  2. Hu Y, et al.
    Interactions of OsMADS1 with Floral Homeotic Genes in Rice Flower Development.
    Mol Plant, 2015. 8(9): p. 1366-84
    [PMID:25917758]
  3. Bai X, et al.
    Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice.
    Sci Rep, 2016. 6: p. 19022
    [PMID:26744119]