PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.1KG072900.4.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family MIKC_MADS
Protein Properties Length: 256aa    MW: 28533.4 Da    PI: 6.7144
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG072900.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.95.4e-28959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++nrqvtfskRr g+lKKA+EL vLCda+v v+ifsstgk++ey+s
  Pavir.1KG072900.4.p  9 KRIENSTNRQVTFSKRRGGLLKKANELAVLCDARVGVVIFSSTGKMFEYCS 59
                         79***********************************************96 PP
2K-box75.11.9e-25711711100
                K-box   1 yqkssgks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqe 89 
                          yq++++++  e ++ ++   e+++Lk+e+++L++ +R++ G+dL+sL+l ++  LeqqLe +++k+R++K++ll +q+++l++ke+ l++
  Pavir.1KG072900.4.p  71 YQHATNTHfEEINQDQQIFVEMTRLKNEMDKLETGIRRYTGDDLSSLTLDDIGDLEQQLEYAVSKVRARKHQLLNQQLDNLRRKEHILED 160
                          56666666667788899999********************************************************************** PP

                K-box  90 enkaLrkklee 100
                          +n+ L ++++e
  Pavir.1KG072900.4.p 161 QNTFLYRMINE 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-32286IPR002100Transcription factor, MADS-box
CDDcd002651.61E-43278No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-29323IPR002100Transcription factor, MADS-box
PfamPF003191.4E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-293859IPR002100Transcription factor, MADS-box
PfamPF014861.2E-2481169IPR002487Transcription factor, K-box
PROSITE profilePS5129714.66985175IPR002487Transcription 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: 256 aa     Download sequence    Send to blast
MGRGKIEIKR IENSTNRQVT FSKRRGGLLK KANELAVLCD ARVGVVIFSS TGKMFEYCSP  60
ACSLKELIEQ YQHATNTHFE EINQDQQIFV EMTRLKNEMD KLETGIRRYT GDDLSSLTLD  120
DIGDLEQQLE YAVSKVRARK HQLLNQQLDN LRRKEHILED QNTFLYRMIN ENQQAAALGG  180
EVKLGEMALL AMLPPPAPFA PHSGCYYGGE SSSTALQLTP AAPQLHPDVG FRLQPTQPNL  240
QDPACGGLHG HGLQL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A7e-19185183MEF2C
5f28_B7e-19185183MEF2C
5f28_C7e-19185183MEF2C
5f28_D7e-19185183MEF2C
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
PlantRegMapPavir.1KG072900.4.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).
GenBankBT0390310.0BT039031.1 Zea mays full-length cDNA clone ZM_BFb0357C10 mRNA, complete cds.
GenBankBT0653740.0BT065374.1 Zea mays full-length cDNA clone ZM_BFb0126G16 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025794853.10.0MADS-box protein ZMM17-like
SwissprotQ8VWM81e-163M17_MAIZE; MADS-box protein ZMM17
TrEMBLA0A2S3GLI70.0A0A2S3GLI7_9POAL; Uncharacterized protein
TrEMBLA0A2T7F2H10.0A0A2T7F2H1_9POAL; Uncharacterized protein
STRINGPavir.Ab00475.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G23260.29e-44MIKC_MADS family protein