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.004G056000.2.p
Common NameSb04g004736, SORBIDRAFT_04g004736
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: 259aa    MW: 28932.8 Da    PI: 6.7178
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G056000.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.95.5e-28959151
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                          krien++nrqvtfskRr g+lKKA+EL vLCda+v v+ifsstgk++ey+s
  Sobic.004G056000.2.p  9 KRIENSTNRQVTFSKRRGGLLKKANELAVLCDARVGVVIFSSTGKMFEYCS 59
                          79***********************************************96 PP
2K-box73.27.4e-25711711100
                 K-box   1 yqkssgks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelq 88 
                           yq++++++  e ++ ++   e++++k+e+++L++ +R++ G+dL+sL+l +   LeqqLe s++k+R++K++ll +q+++l++ke+ l+
  Sobic.004G056000.2.p  71 YQHATNNHfEEINHDQQILLEMTRMKNEMDKLETGIRRYTGDDLSSLTLDDVSDLEQQLEYSVSKVRARKHQLLNQQLDNLRRKEQILE 159
                           6667777777778889999********************************************************************** PP

                 K-box  89 eenkaLrkklee 100
                           ++n+ L ++++e
  Sobic.004G056000.2.p 160 DQNTFLYRMINE 171
                           ******999875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.5E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.226161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.83E-32287IPR002100Transcription factor, MADS-box
CDDcd002651.97E-43278No hitNo description
PRINTSPR004042.9E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.4E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004042.9E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004042.9E-293859IPR002100Transcription factor, MADS-box
PfamPF014863.8E-2481169IPR002487Transcription factor, K-box
PROSITE profilePS5129714.80785175IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008360Biological Processregulation of cell shape
GO:0019252Biological Processstarch biosynthetic process
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:2000029Biological Processregulation of proanthocyanidin biosynthetic process
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: 259 aa     Download sequence    Send to blast
MGRGKIEIKR IENSTNRQVT FSKRRGGLLK KANELAVLCD ARVGVVIFSS TGKMFEYCSP  60
ACSLRELIEQ YQHATNNHFE EINHDQQILL EMTRMKNEMD KLETGIRRYT GDDLSSLTLD  120
DVSDLEQQLE YSVSKVRARK HQLLNQQLDN LRRKEQILED QNTFLYRMIN ENQQATLTGE  180
VKLGEMTAPL AMLPPPAAFT HSTYYGGESS SGGTALQLMS AAPQLQHADL GFRLQPTQPN  240
LQDPAAACGG LHGHGLQL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-18185183MEF2C
5f28_B1e-18185183MEF2C
5f28_C1e-18185183MEF2C
5f28_D1e-18185183MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Strong expression in female inflorescences (ears), but also weak expression in male inflorescences (tassels). At early stages of the development of the female spiklet, expressed in all organ primordia but later restricted to the ovule and the developing silk. At very late stages of development, expression becomes restricted to parts of the silk.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G056000.2.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
GenBankAJ2712080.0AJ271208.1 Zea mays mRNA for putative MADS-domain transcription factor (m17 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002453370.10.0MADS-box protein ZMM17 isoform X2
RefseqXP_021316104.10.0MADS-box protein ZMM17 isoform X1
SwissprotQ8VWM81e-180M17_MAIZE; MADS-box protein ZMM17
TrEMBLC5XW430.0C5XW43_SORBI; Uncharacterized protein
STRINGSb04g004736.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP185037100
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G23260.22e-42MIKC_MADS family protein