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.5KG609000.1.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 LBD
Protein Properties Length: 261aa    MW: 27205.5 Da    PI: 6.4122
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG609000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260127.85e-40751741100
               DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                          +CaaCk+lrr+Ca++C++apyf  ++p++fa+vhk+FGasnv+++l ++ e er da+sslvyeA+ r+rdPvyG++g i+ lqqq++ l
  Pavir.5KG609000.1.p  75 PCAACKLLRRRCAQECPFAPYFSPHEPHNFAAVHKVFGASNVSRMLLEVAEGERADAASSLVYEANLRLRDPVYGCMGAISVLQQQVNAL 164
                          7***************************************************************************************** PP

               DUF260  91 kaelallkee 100
                          +ael+++++e
  Pavir.5KG609000.1.p 165 EAELEAVRAE 174
                          *****99987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089124.90674175IPR004883Lateral organ boundaries, LOB
PfamPF031956.9E-4075172IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 261 aa     Download sequence    Send to blast
MHQTLGGDDS ACWTSACRER LDEIGKKIKR EPDTAALALA AASTSTSTST APAADNRAPR  60
RLGLGLGGAL NTVTPCAACK LLRRRCAQEC PFAPYFSPHE PHNFAAVHKV FGASNVSRML  120
LEVAEGERAD AASSLVYEAN LRLRDPVYGC MGAISVLQQQ VNALEAELEA VRAEILKHRC  180
RQAGAGLMND ARAATASFVA PVHAGDVVSV VEAGQEVAGG GAPGMSVSSS AVYVAEAELP  240
TSTTDHYSSH NPSEHAAYFG *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-427518411120LOB family transfactor Ramosa2.1
5ly0_B1e-427518411120LOB family transfactor Ramosa2.1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269|PubMed:12068116}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG609000.1.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
GenBankEF0572111e-164EF057211.1 Panicum virgatum microsatellite PVSSR075 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004970407.11e-119LOB domain-containing protein 15
SwissprotQ8L5T52e-68LBD15_ARATH; LOB domain-containing protein 15
TrEMBLA0A1E5VHX51e-135A0A1E5VHX5_9POAL; LOB domain-containing protein 15
STRINGPavir.Ea03276.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP26303891
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G40470.12e-61LOB domain-containing protein 15
Publications ? help Back to Top
  1. Ohashi-Ito K,Iwamoto K,Fukuda H
    LOB DOMAIN-CONTAINING PROTEIN 15 Positively Regulates Expression of VND7, a Master Regulator of Tracheary Elements.
    Plant Cell Physiol., 2018. 59(5): p. 989-996
    [PMID:29444288]