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.6KG269800.1.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: 235aa    MW: 26811.4 Da    PI: 9.4772
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG269800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF84.75.3e-27959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         kri+n + rqvtfskRr g++KKA+EL +LCdaev +i+fsstg+ly+++s
  Pavir.6KG269800.1.p  9 KRIDNATSRQVTFSKRRSGLFKKAKELAILCDAEVGLIVFSSTGRLYDFAS 59
                         79***********************************************86 PP
2K-box77.14.5e-2678169697
                K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLr 95 
                          ++  ++a+a+ +q+e+  L+++++nLq+ +R+llG++L  L++k+Lq+Le++Le sl++iR kK++l+++qi+el +k + +++en +L 
  Pavir.6KG269800.1.p  78 QTMSASAEAKLWQREAGSLRQQLHNLQEHHRQLLGQKLCGLDVKDLQNLENKLEMSLRNIRMKKDQLMIDQIQELNRKGRLMHQENIELC 167
                          3346788899****************************************************************************9998 PP

                K-box  96 kk 97 
                          +k
  Pavir.6KG269800.1.p 168 NK 169
                          77 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
CDDcd002653.00E-45278No hitNo description
SuperFamilySSF554551.19E-32291IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-29323IPR002100Transcription factor, MADS-box
PfamPF003193.0E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-293859IPR002100Transcription factor, MADS-box
PfamPF014861.5E-2583169IPR002487Transcription factor, K-box
PROSITE profilePS5129714.50986176IPR002487Transcription 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: 235 aa     Download sequence    Send to blast
MGRGKIEIKR IDNATSRQVT FSKRRSGLFK KAKELAILCD AEVGLIVFSS TGRLYDFAST  60
SMKSVIERYS EAKDDHHQTM SASAEAKLWQ REAGSLRQQL HNLQEHHRQL LGQKLCGLDV  120
KDLQNLENKL EMSLRNIRMK KDQLMIDQIQ ELNRKGRLMH QENIELCNKA NLVHQENIEL  180
RRKVYGHGVN EHPASSTVRN GILNTENEED VLVNLELSQP RSVQRDKSET PSTG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-22186187MEF2C
5f28_B1e-22186187MEF2C
5f28_C1e-22186187MEF2C
5f28_D1e-22186187MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedling roots and developing seeds. {ECO:0000269|PubMed:14701936}.
UniprotTISSUE SPECIFICITY: Ubiquitous. {ECO:0000269|PubMed:14701936}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6KG269800.1.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-158MADS-box transcription factor 23-like
SwissprotQ6EP491e-92MAD27_ORYSJ; MADS-box transcription factor 27
SwissprotQ6VAM41e-93MAD23_ORYSJ; MADS-box transcription factor 23
TrEMBLA0A2T7D7M01e-158A0A2T7D7M0_9POAL; Uncharacterized protein
STRINGPavir.Fb01587.1.p1e-151(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP61435130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57230.11e-90AGAMOUS-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]