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.6KG269400.1.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: 238aa    MW: 26970.4 Da    PI: 6.517
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG269400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF84.85e-27958150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         +rien++ rqvtfskRr g++KKA+EL +LCdaev +i+fsstg+ly++ 
  Pavir.6KG269400.1.p  9 ERIENTTSRQVTFSKRRSGLFKKAKELAILCDAEVGLIVFSSTGRLYDFT 58
                         69**********************************************96 PP
2K-box72.99.3e-2580170999
                K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                           ++a+a+ +q+e+  L+++++nLq+ + +l+G++L+ L++k+Lq+Le+ Le sl++iR kK++l+++qi+el  k   +++en +L +kl
  Pavir.6KG269400.1.p  80 SATAEAKLWQREAGILRQQMHNLQEHHLQLMGQQLSGLDVKDLQNLENTLEMSLRNIRLKKDQLMTDQIQELNTKGSLVHKENIELYNKL 169
                          56788999******************************************************************************9997 PP

                K-box  99 e 99 
                          +
  Pavir.6KG269400.1.p 170 N 170
                          5 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.81161IPR002100Transcription factor, MADS-box
SMARTSM004321.3E-37160IPR002100Transcription factor, MADS-box
CDDcd002651.29E-41278No hitNo description
SuperFamilySSF554553.53E-31282IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-26323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003194.0E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-263859IPR002100Transcription factor, MADS-box
PfamPF014861.3E-2383169IPR002487Transcription factor, K-box
PROSITE profilePS5129714.24885175IPR002487Transcription 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: 238 aa     Download sequence    Send to blast
MGRGKTVIER IENTTSRQVT FSKRRSGLFK KAKELAILCD AEVGLIVFSS TGRLYDFTNT  60
SMKSVIERYH EAEDHHVIMS ATAEAKLWQR EAGILRQQMH NLQEHHLQLM GQQLSGLDVK  120
DLQNLENTLE MSLRNIRLKK DQLMTDQIQE LNTKGSLVHK ENIELYNKLN RIHQENTELK  180
KKVYGQGVNE HPTGTAIKHG IVDLEDEDVA VNLELSQPQN VDSEKSGTPT LGDDDKN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-19176176MEF2C
5f28_B2e-19176176MEF2C
5f28_C2e-19176176MEF2C
5f28_D2e-19176176MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Ubiquitous. {ECO:0000269|PubMed:14701936}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6KG269400.1.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_025820845.11e-163MADS-box transcription factor 23-like isoform X1
SwissprotQ6EP498e-95MAD27_ORYSJ; MADS-box transcription factor 27
TrEMBLA0A2S3I2P11e-162A0A2S3I2P1_9POAL; Uncharacterized protein
STRINGPavir.Fb01587.1.p1e-125(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
AT4G37940.13e-87AGAMOUS-like 21
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]