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.3KG177600.2.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 LBD
Protein Properties Length: 215aa    MW: 22143.1 Da    PI: 9.2776
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG177600.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260129.91.1e-40331321100
               DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                          +CaaCk+lrr+Ca++C+++pyf   +p+kfa+vhk+FGasn++k+l +++e++r d+++slvyeA+ r+rdPvyG++g il+lqqq++ l
  Pavir.3KG177600.2.p  33 PCAACKLLRRRCAQECPFSPYFSPLEPHKFAAVHKVFGASNISKMLLEVHESQRADTANSLVYEANLRLRDPVYGCMGAILTLQQQVQAL 122
                          7***************************************************************************************** PP

               DUF260  91 kaelallkee 100
                          +aela++++e
  Pavir.3KG177600.2.p 123 EAELATVRAE 132
                          ******9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089125.24632133IPR004883Lateral organ boundaries, LOB
PfamPF031952.0E-4033130IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 215 aa     Download sequence    Send to blast
MTAARRSCSL PAGAGAAAAA GAGPGSALNT ITPCAACKLL RRRCAQECPF SPYFSPLEPH  60
KFAAVHKVFG ASNISKMLLE VHESQRADTA NSLVYEANLR LRDPVYGCMG AILTLQQQVQ  120
ALEAELATVR AEIVRHRYRP AAAAASPVAT VLPSSHASQL LAAGRGLHAG RPVGTRTATL  180
AAASSSSSSV VYAAAASSST DYSSITNENV PYFG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A6e-393313611114LOB family transfactor Ramosa2.1
5ly0_B6e-393313611114LOB family transfactor Ramosa2.1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.139940.0root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in shoots and roots and at low levels in flowers, but not in leaves or inflorescence stems. {ECO:0000269|PubMed:12068116}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG177600.2.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
GenBankFP0958311e-133FP095831.1 Phyllostachys edulis cDNA clone: bphyst036h20, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025808905.11e-109LOB domain-containing protein 15-like isoform X2
SwissprotQ9AT611e-68LBD13_ARATH; LOB domain-containing protein 13
TrEMBLA0A3L6SWK51e-103A0A3L6SWK5_PANMI; LOB domain-containing protein 15-like
STRINGPavir.Ca01098.1.p1e-138(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G40470.12e-54LOB domain-containing protein 15
Publications ? help Back to Top
  1. Cho C,Jeon E,Pandey SK,Ha SH,Kim J
    LBD13 positively regulates lateral root formation in Arabidopsis.
    Planta, 2019. 249(4): p. 1251-1258
    [PMID:30627888]