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.5KG682500.1.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: 262aa    MW: 26844.3 Da    PI: 7.8357
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG682500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF2601383.2e-4334132199
               DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                          +CaaCk+lrrkC++dCv+apyfp ++p+kf  vh++FGasnv+kll++l++ +reda++sl+yeA++r+rdPvyG+vgvi+ lq++l+ql
  Pavir.5KG682500.1.p  34 PCAACKFLRRKCQPDCVFAPYFPPDNPQKFVHVHRVFGASNVTKLLNELHPFQREDAVNSLAYEADMRLRDPVYGCVGVISILQHNLRQL 123
                          7***************************************************************************************** PP

               DUF260  91 kaelallke 99 
                          +++la++k 
  Pavir.5KG682500.1.p 124 QQDLARAKY 132
                          ****99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089126.72933134IPR004883Lateral organ boundaries, LOB
PfamPF031954.1E-4334130IPR004883Lateral organ boundaries, LOB
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009799Biological Processspecification of symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0009954Biological Processproximal/distal pattern formation
GO:0048441Biological Processpetal development
GO:0005654Cellular Componentnucleoplasm
Sequence ? help Back to Top
Protein Sequence    Length: 262 aa     Download sequence    Send to blast
MASSSVPAPS GSVITVASSS SSAAAAAVCG TGSPCAACKF LRRKCQPDCV FAPYFPPDNP  60
QKFVHVHRVF GASNVTKLLN ELHPFQREDA VNSLAYEADM RLRDPVYGCV GVISILQHNL  120
RQLQQDLARA KYELSKYQAA AAASASTGPN GPQAMAEFIG SAMPNGAHNF INIGHSPALG  180
SIGGGSPAIF GQEQFASAQM LSRSYDGEPV ARLGINGGYE FGYSTAMGGA AGPVSGLGML  240
GISPFLKSGT AGGDEKPSAG Q*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A3e-53241371114LOB family transfactor Ramosa2.1
5ly0_B3e-53241371114LOB 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00211DAPTransfer from AT1G65620Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG682500.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY9406810.0AY940681.1 Zea mays ASYMMETRIC LEAVES2 mRNA, complete cds.
GenBankEU9660920.0EU966092.1 Zea mays clone 291632 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025817833.11e-166LOB domain-containing protein 6
RefseqXP_025817835.11e-166LOB domain-containing protein 6
SwissprotQ32SG31e-157LBD6_MAIZE; LOB domain-containing protein 6
TrEMBLA0A2T7DDD61e-167A0A2T7DDD6_9POAL; Uncharacterized protein
TrEMBLA0A3L6RGB01e-167A0A3L6RGB0_PANMI; LOB domain-containing protein 6
STRINGPavir.Ea03589.1.p0.0(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
AT1G65620.46e-59LBD family protein