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 Pavir.6KG269800.2.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: 169aa    MW: 19371.3 Da    PI: 10.2895
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG269800.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF85.62.9e-27959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         kri+n + rqvtfskRr g++KKA+EL +LCdaev +i+fsstg+ly+++s
  Pavir.6KG269800.2.p  9 KRIDNATSRQVTFSKRRSGLFKKAKELAILCDAEVGLIVFSSTGRLYDFAS 59
                         79***********************************************86 PP
2K-box73.75.1e-2578159687
                K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekel 87 
                          ++  ++a+a+ +q+e+  L+++++nLq+ +R+llG++L  L++k+Lq+Le++Le sl++iR kK++l+++qi+el +k  ++
  Pavir.6KG269800.2.p  78 QTMSASAEAKLWQREAGSLRQQLHNLQEHHRQLLGQKLCGLDVKDLQNLENKLEMSLRNIRMKKDQLMIDQIQELNRKVCSH 159
                          3336788899*******************************************************************97655 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004326.4E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.674161IPR002100Transcription factor, MADS-box
CDDcd002656.09E-45278No hitNo description
SuperFamilySSF554555.36E-33291IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-29323IPR002100Transcription factor, MADS-box
PfamPF003191.6E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-293859IPR002100Transcription factor, MADS-box
PfamPF014862.3E-2383156IPR002487Transcription factor, K-box
PROSITE profilePS5129712.92386168IPR002487Transcription 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: 169 aa     Download sequence    Send to blast
MGRGKIEIKR IDNATSRQVT FSKRRSGLFK KAKELAILCD AEVGLIVFSS TGRLYDFAST  60
SMKSVIERYS EAKDDHHQTM SASAEAKLWQ REAGSLRQQL HNLQEHHRQL LGQKLCGLDV  120
KDLQNLENKL EMSLRNIRMK KDQLMIDQIQ ELNRKVCSHN SIKITNQF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-23192192MEF2C
5f28_B2e-23192192MEF2C
5f28_C2e-23192192MEF2C
5f28_D2e-23192192MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedling roots and developing seeds. {ECO:0000269|PubMed:14701936}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6KG269800.2.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_025821378.11e-105MADS-box transcription factor 23-like
SwissprotQ6VAM47e-96MAD23_ORYSJ; MADS-box transcription factor 23
TrEMBLA0A2S3I2P01e-103A0A2S3I2P0_9POAL; Uncharacterized protein
TrEMBLA0A2T7D7M01e-103A0A2T7D7M0_9POAL; Uncharacterized protein
TrEMBLA0A2T8IH161e-104A0A2T8IH16_9POAL; Uncharacterized protein
STRINGPavir.Fb01587.1.p2e-96(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57230.14e-78AGAMOUS-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]
  3. Wang H, et al.
    A Signaling Cascade from miR444 to RDR1 in Rice Antiviral RNA Silencing Pathway.
    Plant Physiol., 2016. 170(4): p. 2365-77
    [PMID:26858364]