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.001G478400.1.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: 233aa    MW: 26288.8 Da    PI: 8.4735
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G478400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF79.42.5e-251261251
                          ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          ri+n   rqvtfskRr g++KKAeELS+LCdaev +++fs tgkl+ ++s
  Sobic.001G478400.1.p 12 RIDNLAARQVTFSKRRRGLFKKAEELSILCDAEVGLVVFSATGKLFHFAS 61
                          89********************************************9986 PP
2K-box449.1e-16941741999
                 K-box  19 qelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                              a+Lk+e+ +   ++R++ Ge+L++Ls+++Lq+Le+ Le++l ++ ++K++ +l++i+ l +k  el een +L+++l+
  Sobic.001G478400.1.p  94 GTCARLKQELAETSLKLRQMRGEELQRLSVQQLQELEKTLESGLGSVLKTKSQKILDEISGLERKRMELIEENSRLKEQLQ 174
                           45789************************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006627.151363IPR002100Transcription factor, MADS-box
SMARTSM004322.2E-33362IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.09E-29589IPR002100Transcription factor, MADS-box
CDDcd002651.39E-37579No hitNo description
PROSITE patternPS003500559IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-24525IPR002100Transcription factor, MADS-box
PfamPF003191.6E-241259IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-242540IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-244061IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.90889179IPR002487Transcription factor, K-box
PfamPF014861.3E-1496173IPR002487Transcription 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: 233 aa     Download sequence    Send to blast
MAGKRERIAI RRIDNLAARQ VTFSKRRRGL FKKAEELSIL CDAEVGLVVF SATGKLFHFA  60
STSMKQVIDR YDSHSKNLQK SEAPSQLQSH IDDGTCARLK QELAETSLKL RQMRGEELQR  120
LSVQQLQELE KTLESGLGSV LKTKSQKILD EISGLERKRM ELIEENSRLK EQLQVTRMAR  180
METQLGVDSE IVYEEGQSSE SVTNTSYPRP STDTDDCSDT SLRLGLPFFS SK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-19575373MEF2C
5f28_B6e-19575373MEF2C
5f28_C6e-19575373MEF2C
5f28_D6e-19575373MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.6440.0embryo| leaf| pollen| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and developing panicles. {ECO:0000269|PubMed:15682279}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G478400.1.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
GenBankFJ0092590.0FJ009259.1 Saccharum officinarum MADS box protein mRNA, complete cds.
GenBankFJ6088260.0FJ608826.1 Saccharum arundinaceum MADS box transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021307340.11e-168MADS-box transcription factor 47-like isoform X1
RefseqXP_021307341.11e-168MADS-box transcription factor 47-like isoform X1
SwissprotQ5K4R01e-127MAD47_ORYSJ; MADS-box transcription factor 47
TrEMBLA0A1B6QQ241e-167A0A1B6QQ24_SORBI; Uncharacterized protein
STRINGSb01g044810.11e-167(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12213697
Representative plantOGRP60761120
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.13e-76MIKC_MADS family protein
Publications ? help Back to Top
  1. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  2. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]