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.5NG475300.1.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: 198aa    MW: 22824.9 Da    PI: 6.6829
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG475300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF74.77.3e-24958150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         krien ++rq tf kRr g++KKA ELSvLCd++ ++++fs++gkly y 
  Pavir.5NG475300.1.p  9 KRIENPTQRQSTFYKRRDGLFKKARELSVLCDVDLLLLLFSTSGKLYHYL 58
                         79*********************************************996 PP
2K-box28.85.1e-1172169198
                K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqee 90 
                          y++++++++++   ++ + el+k ++  e +++e+R +  +d e+ ++  L+ Le++Le ++ k+Rs K++ +  +i +l +  +  qee
  Pavir.5NG475300.1.p  72 YEAATHTKVWTDIRQERRAELEKAEQMCELMEKELRFMTVDDGEQYTVPSLELLERNLEAAMHKVRSEKDRKIGGEITYLENIIRGRQEE 161
                          566778889***********************************************************************9999999988 PP

                K-box  91 nkaLrkkl 98 
                             L  kl
  Pavir.5NG475300.1.p 162 RYGLCDKL 169
                          88887766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.6E-32160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006628.581161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.57E-28291IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-23323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003197.9E-231057IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-232338IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-233859IPR002100Transcription factor, MADS-box
PfamPF014862.7E-1284169IPR002487Transcription factor, K-box
PROSITE profilePS512979.90385175IPR002487Transcription 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: 198 aa     Download sequence    Send to blast
MGRGRSEIKR IENPTQRQST FYKRRDGLFK KARELSVLCD VDLLLLLFST SGKLYHYLSP  60
TVPSVKDLVE RYEAATHTKV WTDIRQERRA ELEKAEQMCE LMEKELRFMT VDDGEQYTVP  120
SLELLERNLE AAMHKVRSEK DRKIGGEITY LENIIRGRQE ERYGLCDKLA HSQALNHDEE  180
AGSTSLSNGL ELKLGFN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A3e-14184184MEF2 CHIMERA
6byy_B3e-14184184MEF2 CHIMERA
6byy_C3e-14184184MEF2 CHIMERA
6byy_D3e-14184184MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.203290.0stem
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG475300.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9750460.0EU975046.1 Zea mays clone 465896 MADS-box transcription factor 32 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818300.11e-142MADS-box transcription factor 32 isoform X1
SwissprotQ8S1511e-119MAD32_ORYSJ; MADS-box transcription factor 32
TrEMBLA0A2S3HS291e-141A0A2S3HS29_9POAL; Uncharacterized protein
TrEMBLA0A2T7DHB41e-141A0A2T7DHB4_9POAL; Uncharacterized protein
STRINGPavir.Eb02653.1.p1e-143(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP119233439
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.21e-22MIKC_MADS family protein
Publications ? help Back to Top
  1. Wang H, et al.
    OsMADS32 interacts with PI-like proteins and regulates rice flower development.
    J Integr Plant Biol, 2015. 57(5): p. 504-13
    [PMID:25081486]
  2. Khanday I, et al.
    Genome-Wide Targets Regulated by the OsMADS1 Transcription Factor Reveals Its DNA Recognition Properties.
    Plant Physiol., 2016. 172(1): p. 372-88
    [PMID:27457124]