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.9NG177400.1.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: 204aa    MW: 20961.8 Da    PI: 8.4796
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG177400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260140.74.6e-44331321100
               DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                          +CaaCk+lrr+Ca++Cv+apyfp  +p+kfanvhk+FGasnv+kll+++p ++r da+sslvyeA+ar+rdPvyG+vg i++lqqq+e l
  Pavir.9NG177400.1.p  33 PCAACKLLRRRCAASCVFAPYFPPGEPHKFANVHKVFGASNVSKLLQEIPVQHRGDAVSSLVYEANARVRDPVYGCVGAISSLQQQVEAL 122
                          7***************************************************************************************** PP

               DUF260  91 kaelallkee 100
                          +a+lal+++e
  Pavir.9NG177400.1.p 123 QAQLALAQAE 132
                          ******9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089125.72832133IPR004883Lateral organ boundaries, LOB
PfamPF031951.4E-4333130IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 204 aa     Download sequence    Send to blast
MRDAVAVAVG TPGGGRAGGA GTGGAASASG SAPCAACKLL RRRCAASCVF APYFPPGEPH  60
KFANVHKVFG ASNVSKLLQE IPVQHRGDAV SSLVYEANAR VRDPVYGCVG AISSLQQQVE  120
ALQAQLALAQ AEMVRLKMSN DYIVHRLKAA RGGGGGGSSY AGSPSSMSSP KTAEPEAHFK  180
ATPELLDMVV DQPGMDDAPF WSY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-493213510113LOB family transfactor Ramosa2.1
5ly0_B1e-493213510113LOB family transfactor Ramosa2.1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed predominantly in roots, and at low levels in shoots, floral stems and open flowers. {ECO:0000269|PubMed:12068116}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG177400.1.p
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0699110.0BT069911.1 Zea mays full-length cDNA clone ZM_BFb0321D10 mRNA, complete cds.
GenBankKJ7276500.0KJ727650.1 Zea mays clone pUT5577 LOB transcription factor (LOB19) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025791513.18e-94LOB domain-containing protein 4-like isoform X2
SwissprotQ8LBW32e-58LBD12_ARATH; LOB domain-containing protein 12
TrEMBLA0A3L6TSK81e-102A0A3L6TSK8_PANMI; LOB domain-containing protein 4-like
STRINGPavir.Ia01095.1.p1e-145(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP88238150
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G31320.15e-37LOB domain-containing protein 4
Publications ? help Back to Top
  1. Penfield S, et al.
    Reserve mobilization in the Arabidopsis endosperm fuels hypocotyl elongation in the dark, is independent of abscisic acid, and requires PHOSPHOENOLPYRUVATE CARBOXYKINASE1.
    Plant Cell, 2004. 16(10): p. 2705-18
    [PMID:15367715]