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.9NG813700.1.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: 234aa    MW: 26245.8 Da    PI: 8.6997
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG813700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF79.42.5e-251261251
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         ri+n   rqvtfskRr g++KKAeELS+LCdaev +++fs tgkl+ ++s
  Pavir.9NG813700.1.p 12 RIDNLAARQVTFSKRRRGLFKKAEELSILCDAEVGLVVFSATGKLFHFAS 61
                         89********************************************9986 PP
2K-box44.85.5e-16901741599
                K-box  15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                             +   a+L++e+ +   ++R++ Ge+L++Ls+++Lq+Le+ Le++l ++ ++K++ +l++i+ l +k  +l een +L+++l+
  Pavir.9NG813700.1.p  90 HVDDSTCARLREELAEASLKLRQMRGEELQRLSVQQLQELEKTLESGLGSVLKTKSQKILDEINGLERKRMQLIEENSRLKEQLQ 174
                          44566789*************************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.2E-33362IPR002100Transcription factor, MADS-box
PROSITE profilePS5006627.137363IPR002100Transcription factor, MADS-box
PROSITE patternPS003500559IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-29589IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-24525IPR002100Transcription factor, MADS-box
CDDcd002651.54E-37576No hitNo description
PfamPF003191.6E-241259IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-242540IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-244061IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.07789179IPR002487Transcription factor, K-box
PfamPF014861.4E-1494173IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009266Biological Processresponse to temperature stimulus
GO:0009910Biological Processnegative regulation of flower development
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010582Biological Processfloral meristem determinacy
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048438Biological Processfloral whorl development
GO:0005634Cellular Componentnucleus
GO:0000900Molecular Functiontranslation repressor activity, nucleic acid binding
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: 234 aa     Download sequence    Send to blast
MAGKRERIAI RRIDNLAARQ VTFSKRRRGL FKKAEELSIL CDAEVGLVVF SATGKLFHFA  60
SSSMNRIIDR YDSHSKTLQK SEAPSQLQSH VDDSTCARLR EELAEASLKL RQMRGEELQR  120
LSVQQLQELE KTLESGLGSV LKTKSQKILD EINGLERKRM QLIEENSRLK EQLQVTRMAR  180
MEMQLGADSE VVYEEGQSSE SVTNASYPRP PADTDDGGSD TSLRLGLPLF SSK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-19575373MEF2C
5f28_B6e-19575373MEF2C
5f28_C6e-19575373MEF2C
5f28_D6e-19575373MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.102820.0leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and developing panicles. {ECO:0000269|PubMed:15682279}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00272DAPTransfer from AT2G22540Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG813700.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0382090.0BT038209.1 Zea mays full-length cDNA clone ZM_BFb0217J06 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025793840.11e-163MADS-box transcription factor 47-like isoform X1
RefseqXP_025793841.11e-163MADS-box transcription factor 47-like isoform X1
RefseqXP_025793842.11e-163MADS-box transcription factor 47-like isoform X1
SwissprotQ5K4R01e-129MAD47_ORYSJ; MADS-box transcription factor 47
TrEMBLA0A3L6TT491e-162A0A3L6TT49_PANMI; Uncharacterized protein
STRINGPavir.Ia04527.1.p1e-168(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12213697
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.11e-80MIKC_MADS family protein
Publications ? help Back to Top
  1. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  2. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]