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.4KG106900.1.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 M-type_MADS
Protein Properties Length: 88aa    MW: 9843.4 Da    PI: 10.7381
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4KG106900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF91.73.6e-29959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++nrqvtfskRr+g++KKA EL +LCda+v v++fss g+lye+s+
  Pavir.4KG106900.1.p  9 KRIENETNRQVTFSKRRAGLFKKARELAILCDAQVGVLVFSSAGRLYEFSN 59
                         79***********************************************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.885161IPR002100Transcription factor, MADS-box
SMARTSM004329.1E-38160IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-28323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.14E-31378IPR002100Transcription factor, MADS-box
CDDcd002659.80E-41375No hitNo description
PfamPF003191.5E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-283859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 88 aa     Download sequence    Send to blast
MVRGKTVIKR IENETNRQVT FSKRRAGLFK KARELAILCD AQVGVLVFSS AGRLYEFSNT  60
SMTSIVERYQ HMKEGNQLMS ASTEAKV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-19177177Myocyte-specific enhancer factor 2B
1tqe_Q3e-19177177Myocyte-specific enhancer factor 2B
1tqe_R3e-19177177Myocyte-specific enhancer factor 2B
1tqe_S3e-19177177Myocyte-specific enhancer factor 2B
6c9l_A3e-19177177Myocyte-specific enhancer factor 2B
6c9l_B3e-19177177Myocyte-specific enhancer factor 2B
6c9l_C3e-19177177Myocyte-specific enhancer factor 2B
6c9l_D3e-19177177Myocyte-specific enhancer factor 2B
6c9l_E3e-19177177Myocyte-specific enhancer factor 2B
6c9l_F3e-19177177Myocyte-specific enhancer factor 2B
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.4KG106900.1.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_015641670.12e-45MADS-box transcription factor 23-like
SwissprotQ6VAM41e-36MAD23_ORYSJ; MADS-box transcription factor 23
TrEMBLA0A0E0LBE32e-44A0A0E0LBE3_ORYPU; Uncharacterized protein
TrEMBLA0A0P0WWA74e-45A0A0P0WWA7_ORYSJ; Os06g0347700 protein
STRINGPavir.Da00991.1.p2e-57(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12938398
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G14210.13e-34AGAMOUS-like 44
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]