PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5KG684300.1.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: 226aa    MW: 23355.3 Da    PI: 7.422
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG684300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260134.54e-4233131199
               DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                          +CaaCk+lrrkC++dCv+apyfp ++p+kf  vh++FGasnv+kll++l + +reda++sl+yeA++r+ dPvyG+vgvi+ lq++l+ql
  Pavir.5KG684300.1.p  33 PCAACKFLRRKCQPDCVFAPYFPPDNPQKFVHVHRVFGASNVTKLLNELLPFQREDAVNSLAYEADMRLGDPVYGCVGVISILQHNLRQL 122
                          7***************************************************************************************** PP

               DUF260  91 kaelallke 99 
                          +++la++k 
  Pavir.5KG684300.1.p 123 QQDLARAKY 131
                          ****99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089126.17232133IPR004883Lateral organ boundaries, LOB
PfamPF031954.2E-4233129IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 226 aa     Download sequence    Send to blast
MASSVPAPSG SVITVASSSS SAAAAAVCGT GSPCAACKFL RRKCQPDCVF APYFPPDNPQ  60
KFVHVHRVFG ASNVTKLLNE LLPFQREDAV NSLAYEADMR LGDPVYGCVG VISILQHNLR  120
QLQQDLARAK YELSKYQAAA AAASASTGPN GPQAMAEFIG SAVPNGAHNF INIGHSPALG  180
SIGGSLAAFG QEQFANAQML SRSYDGEPIS RLGINGGDEK PSAGQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A4e-53231361114LOB family transfactor Ramosa2.1
5ly0_B4e-53231361114LOB family transfactor Ramosa2.1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In embryo sac, detected as early as the one-nucleus stage. In older embryo sacs, highest expression in antipodal cells. {ECO:0000269|PubMed:17209126}.
UniprotTISSUE SPECIFICITY: Expressed in leaves, leaf primordia, immature ears, immature tassels, whole ovules, silk and husk leaves. Found on the adaxial side of organs. {ECO:0000269|PubMed:17209126}.
Functional Description ? help Back to Top
Source Description
UniProtPromotes the switch from proliferation to differentiation in the embryo sac. Negative regulator of cell proliferation in the adaxial side of leaves. Regulates the formation of a symmetric lamina and the establishment of venation. Interacts directly with RS2 (rough sheath 2) to repress some knox homeobox genes. {ECO:0000269|PubMed:17209126}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG684300.1.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
GenBankAY9406810.0AY940681.1 Zea mays ASYMMETRIC LEAVES2 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025817833.11e-138LOB domain-containing protein 6
RefseqXP_025817835.11e-138LOB domain-containing protein 6
SwissprotQ32SG31e-131LBD6_MAIZE; LOB domain-containing protein 6
TrEMBLA0A2S3HPE21e-137A0A2S3HPE2_9POAL; Uncharacterized protein
STRINGPavir.J16692.1.p1e-163(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP22673895
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G65620.42e-56LBD family protein