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.004G250000.2.p
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: 185aa    MW: 21256.7 Da    PI: 10.4739
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G250000.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF92.52.1e-291059251
                          ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          ri+n++ rqvtfskRrng+lKKA+ELS+LCdaev +iifsstg+lye+ss
  Sobic.004G250000.2.p 10 RIDNSTSRQVTFSKRRNGLLKKAKELSILCDAEVGLIIFSSTGRLYEFSS 59
                          8***********************************************96 PP
2K-box61.33.8e-2178145673
                 K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnell 73 
                           g+++++++   +q+e+a L+++++nLq+++++l+Ge+L+ L +++Lq+Le++Le sl++iR +K  l+
  Sobic.004G250000.2.p  78 GTNNATSELMLWQREAASLRQQLHNLQESHKQLMGEELSGLGVRDLQSLESHLEMSLRSIRMRKVILI 145
                           45578888999*****************************************************8666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.5E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.38161IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.23E-33291IPR002100Transcription factor, MADS-box
CDDcd002651.68E-43276No hitNo description
PRINTSPR004042.5E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003196.2E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004042.5E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004042.5E-293859IPR002100Transcription factor, MADS-box
PfamPF014867.8E-2084183IPR002487Transcription factor, K-box
PROSITE profilePS5129710.93786184IPR002487Transcription 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: 185 aa     Download sequence    Send to blast
MGRGKIVIRR IDNSTSRQVT FSKRRNGLLK KAKELSILCD AEVGLIIFSS TGRLYEFSST  60
NMKAVIDRYG KAKEEQIGTN NATSELMLWQ REAASLRQQL HNLQESHKQL MGEELSGLGV  120
RDLQSLESHL EMSLRSIRMR KVILIIHFVT MFWFSIHFNL ICSNVKQDHI LKSEIEELHR  180
KVKS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-21182182MEF2C
5f28_B2e-21182182MEF2C
5f28_C2e-21182182MEF2C
5f28_D2e-21182182MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.72152e-71leaf
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedling roots and shoots (PubMed:14701936). Highly expressed in young leaves (PubMed:23463009). {ECO:0000269|PubMed:14701936, ECO:0000269|PubMed:23463009}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional factor that targets the CArG motif 5'-C(A/T)TTAAAAAG-3' in the promoter of D14. Directly suppresses D14 expression to control the outgrowth of axillary buds. {ECO:0000269|PubMed:23463009}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G250000.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM5029051e-124AM502905.1 Triticum aestivum mRNA for MIKC-type MADS-box transcription factor WM32B (WM32B gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021315543.11e-130MADS-box transcription factor 57-like isoform X2
SwissprotQ6Z6W22e-86MAD57_ORYSJ; MADS-box transcription factor 57
TrEMBLA0A194YSL31e-130A0A194YSL3_SORBI; Uncharacterized protein
STRINGPavir.Ab02921.1.p5e-95(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57230.15e-72AGAMOUS-like 16
Publications ? help Back to Top
  1. Guo S, et al.
    The interaction between OsMADS57 and OsTB1 modulates rice tillering via DWARF14.
    Nat Commun, 2013. 4: p. 1566
    [PMID:23463009]
  2. 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]
  3. 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]
  4. Wang H, et al.
    A Signaling Cascade from miR444 to RDR1 in Rice Antiviral RNA Silencing Pathway.
    Plant Physiol., 2016. 170(4): p. 2365-77
    [PMID:26858364]