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.006G107700.2.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: 240aa    MW: 27346.1 Da    PI: 9.0358
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G107700.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.28.9e-281059251
                          ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          ri+n++ rqvtfskRrngi+KKA EL +LCdaev ++ifsstg+lyey+s
  Sobic.006G107700.2.p 10 RIDNSTSRQVTFSKRRNGIFKKARELGILCDAEVGLVIFSSTGRLYEYAS 59
                          8***********************************************86 PP
2K-box86.84.4e-2975170398
                 K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeen 91 
                           +++ +++ +++ + +q+e++ L+++++nLq+++R+l+G+dL+ L +k Lq+Le+qLe s++ iR+kK++ll+++i+el +k   +q++n
  Sobic.006G107700.2.p  75 EQQLVANPNTELKFWQREATSLRQQLHNLQENHRQLMGQDLSGLGVKGLQNLENQLEMSVRCIRTKKDQLLVDEIHELNRKGSLIQQDN 163
                           566777889999***************************************************************************** PP

                 K-box  92 kaLrkkl 98 
                           ++L++k+
  Sobic.006G107700.2.p 164 MELHRKV 170
                           *****98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.7E-38160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.539161IPR002100Transcription factor, MADS-box
CDDcd002655.12E-45277No hitNo description
SuperFamilySSF554551.2E-32291IPR002100Transcription factor, MADS-box
PRINTSPR004047.9E-28323IPR002100Transcription factor, MADS-box
PfamPF003192.9E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004047.9E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004047.9E-283859IPR002100Transcription factor, MADS-box
PfamPF014864.1E-2783170IPR002487Transcription factor, K-box
PROSITE profilePS5129715.15686176IPR002487Transcription 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: 240 aa     Download sequence    Send to blast
MGRGKIVIRR IDNSTSRQVT FSKRRNGIFK KARELGILCD AEVGLVIFSS TGRLYEYAST  60
SMKSVIDRYG RAKEEQQLVA NPNTELKFWQ REATSLRQQL HNLQENHRQL MGQDLSGLGV  120
KGLQNLENQL EMSVRCIRTK KDQLLVDEIH ELNRKGSLIQ QDNMELHRKV NLIRQENAEL  180
YKLYEKEAAG EVNRDSTTPY NFAVAENANI PIHLELNTTP QEHDVEPPAA PKLGLQLNP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-20183183MEF2C
5f28_B2e-20183183MEF2C
5f28_C2e-20183183MEF2C
5f28_D2e-20183183MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Ubiquitous. {ECO:0000269|PubMed:14701936}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G107700.2.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_021319518.11e-178MADS-box transcription factor 27 isoform X1
SwissprotQ6EP491e-142MAD27_ORYSJ; MADS-box transcription factor 27
TrEMBLA0A1Z5RD981e-177A0A1Z5RD98_SORBI; Uncharacterized protein
STRINGPavir.Ga01454.1.p1e-158(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP61435130
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57230.13e-96AGAMOUS-like 16
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]