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.7KG313000.1.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: 255aa    MW: 28443.3 Da    PI: 8.9197
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7KG313000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.81.1e-31958150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         krienk+nrqvtfskRrng+lKKA+ELSvLCdaeva+i+fss+gklye+ 
  Pavir.7KG313000.1.p  9 KRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIVFSSRGKLYEFG 58
                         79**********************************************95 PP
2K-box102.36.3e-34861721399
                K-box  13 kaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                          + +s++qe+++Lk+++e+Lqr+qRh+lGedL++Ls+keLqqLe+qL+ +l++ R++K+++++eq++el++ke++l e nk+L++kle
  Pavir.7KG313000.1.p  86 EPQSWYQEMSRLKAKLESLQRSQRHMLGEDLGPLSIKELQQLEKQLQYALSQARQRKTQMMMEQVDELRRKERQLGELNKQLKNKLE 172
                          579**********************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.529161IPR002100Transcription factor, MADS-box
SMARTSM004321.6E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.98E-33275IPR002100Transcription factor, MADS-box
CDDcd002655.31E-45277No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-33323IPR002100Transcription factor, MADS-box
PfamPF003192.1E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004047.6E-333859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129717.43787177IPR002487Transcription factor, K-box
PfamPF014862.0E-3087171IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation 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: 255 aa     Download sequence    Send to blast
MGRGRVELKR IENKINRQVT FSKRRNGLLK KAYELSVLCD AEVALIVFSS RGKLYEFGSA  60
GVSKTLEKYH NCCYNAHGSN NDFGGEPQSW YQEMSRLKAK LESLQRSQRH MLGEDLGPLS  120
IKELQQLEKQ LQYALSQARQ RKTQMMMEQV DELRRKERQL GELNKQLKNK LEAEGCSNYR  180
AVVVQTSWAT DAVVGSDGGA LPAPNAQPAA AMDCEPTLQI GYHQFASPEA AAMPRSSTTE  240
GGEQNGHFML GWAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A4e-22169169MEF2C
5f28_B4e-22169169MEF2C
5f28_C4e-22169169MEF2C
5f28_D4e-22169169MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the floral meristem, lodicule, palea, lemma, receptacle, empty glume, stamen, pistil, and ovule. {ECO:0000269|PubMed:19820190}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Plays minor but redundant roles with MADS6 in floral development. {ECO:0000269|PubMed:19820190}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.7KG313000.1.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_025824169.11e-178MADS-box transcription factor 17-like
SwissprotQ7XUN21e-130MAD17_ORYSJ; MADS-box transcription factor 17
TrEMBLA0A2S3I9M91e-177A0A2S3I9M9_9POAL; Uncharacterized protein
STRINGSi010898m1e-169(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP41873566
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45650.16e-85AGAMOUS-like 6
Publications ? help Back to Top
  1. Duan Y, et al.
    Characterization of Osmads6-5, a null allele, reveals that OsMADS6 is a critical regulator for early flower development in rice (Oryza sativa L.).
    Plant Mol. Biol., 2012. 80(4-5): p. 429-42
    [PMID:22933119]
  2. Hu Y, et al.
    Interactions of OsMADS1 with Floral Homeotic Genes in Rice Flower Development.
    Mol Plant, 2015. 8(9): p. 1366-84
    [PMID:25917758]
  3. Bai X, et al.
    Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice.
    Sci Rep, 2016. 6: p. 19022
    [PMID:26744119]