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.004G191901.1.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: 241aa    MW: 27347 Da    PI: 9.288
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G191901.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF88.14.9e-281059251
                          ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          ri+n++ rqvtfskRrngi+KKA+EL +LCdaev ++ifsstg+lyeyss
  Sobic.004G191901.1.p 10 RIDNSTSRQVTFSKRRNGIFKKAKELAILCDAEVGLMIFSSTGRLYEYSS 59
                          8***********************************************96 PP
2K-box94.51.7e-3176170498
                 K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenk 92 
                           ++ +++ +++ + +q+e+a L+++++nLq++ R+l+GedL+ L++keLq+Le+qLe+sl+ +R+kK++ll+++i+el +k    ++en+
  Sobic.004G191901.1.p  76 QQVVANPNSELKFWQREAASLRQQLHNLQENYRQLMGEDLSGLNVKELQSLENQLETSLRGVRAKKDHLLIDEIHELNRKASLFHQENT 164
                           5566688999******************************************************************************* PP

                 K-box  93 aLrkkl 98 
                           +L +k+
  Sobic.004G191901.1.p 165 DLYNKI 170
                           **9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.2E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.651161IPR002100Transcription factor, MADS-box
CDDcd002651.69E-45277No hitNo description
SuperFamilySSF554555.89E-33291IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-27323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003198.3E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-273859IPR002100Transcription factor, MADS-box
PfamPF014861.4E-2883170IPR002487Transcription factor, K-box
PROSITE profilePS5129715.55586176IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010440Biological Processstomatal lineage progression
GO:0048574Biological Processlong-day photoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008134Molecular Functiontranscription factor binding
GO:0042803Molecular Functionprotein homodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 241 aa     Download sequence    Send to blast
MGRGKIVIRR IDNSTSRQVT FSKRRNGIFK KAKELAILCD AEVGLMIFSS TGRLYEYSST  60
SMKSVIDRYG KAKEEQQVVA NPNSELKFWQ REAASLRQQL HNLQENYRQL MGEDLSGLNV  120
KELQSLENQL ETSLRGVRAK KDHLLIDEIH ELNRKASLFH QENTDLYNKI NLVRQENAEL  180
HKKIYETEGP SGVNQESPTP FNFPVVETRD VPVQLGLSTL PQQNNIEPST APKLGLQLSP  240
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A4e-20183183MEF2C
5f28_B4e-20183183MEF2C
5f28_C4e-20183183MEF2C
5f28_D4e-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.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00410DAPTransfer from AT3G57230Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G191901.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF1121490.0AF112149.1 Zea mays MADS box protein 2 (mads2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021316271.11e-178MADS-box transcription factor 27 isoform X2
SwissprotQ6EP491e-155MAD27_ORYSJ; MADS-box transcription factor 27
TrEMBLA0A1Z5RN721e-176A0A1Z5RN72_SORBI; Uncharacterized protein
STRINGPavir.Ab02020.1.p1e-159(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
AT3G57230.12e-99AGAMOUS-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]