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.5KG476700.1.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 B3
Protein Properties Length: 292aa    MW: 32353.7 Da    PI: 8.3959
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG476700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B353.93.3e-1774170295
                          EEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEE.TTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   2 fkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltled.esgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          +k+l +sdv+++gr+vlpkk ae++      + + +k l ++d ++ + W++k++y  +++s++yvl+ ++ ++ ka++L++gDf+v++ 
  Pavir.5KG476700.1.p  74 QKELRNSDVNQLGRIVLPKKEAESYlpilL-S-KDGKSLCMYDlLNAQLWTFKYRYwpNNRSRMYVLE-NTGDYIKAHELQQGDFIVIYK 160
                          7999***********************852.3.35678*****7888*********888888889999.********************5 PP

                          -SSSEE..EEE CS
                   B3  85 dgrsefelvvk 95 
                          d+ ++ ++v++
  Pavir.5KG476700.1.p 161 DD-ENDRFVIG 170
                          54.44445665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd100172.63E-2372169No hitNo description
Gene3DG3DSA:2.40.330.102.6E-2372174IPR015300DNA-binding pseudobarrel domain
SMARTSM010193.9E-1273175IPR003340B3 DNA binding domain
PROSITE profilePS508639.43273175IPR003340B3 DNA binding domain
SuperFamilySSF1019365.3E-1973169IPR015300DNA-binding pseudobarrel domain
PfamPF023621.8E-1374170IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048573Biological Processphotoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 292 aa     Download sequence    Send to blast
MAGISKRRTS PASTSSSSGD GMPRRITRKP RSARRGARAA ARRPPATRPV NALDLNTVAL  60
DPDHYATGLR VLLQKELRNS DVNQLGRIVL PKKEAESYLP ILLSKDGKSL CMYDLLNAQL  120
WTFKYRYWPN NRSRMYVLEN TGDYIKAHEL QQGDFIVIYK DDENDRFVIG AKKAGYELTA  180
TVPQIHEHMH ISAATLPAPQ VFHDYAAPVA PEADMLALVP QADEIFDGIL NSLPEIPVAN  240
VRYSDFFDPF GDSMDMANPL GSNHSVNLAT HFHDEKAGSS SFPYPKSGPL M*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9b_A3e-39691821114B3 domain-containing transcription factor FUS3
6j9b_D3e-39691821114B3 domain-containing transcription factor FUS3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.60340.0callus
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in anthers, pollen grains and young developing embryos. {ECO:0000269|PubMed:17913295}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription repressor involved in flowering time regulation. Represses the flowering activator EHD1 by binding specifically to the DNA sequence 5'-CATGCATG-3 of its promoter. {ECO:0000269|PubMed:17592727, ECO:0000269|PubMed:17913295}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG476700.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004969734.10.0B3 domain-containing protein LFL1
SwissprotA4LBC01e-115LFL1_ORYSJ; B3 domain-containing protein LFL1
TrEMBLK3XRB80.0K3XRB8_SETIT; Uncharacterized protein
STRINGSi004459m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP80912736
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G26790.11e-40B3 family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Yang J, et al.
    OsVIL2 functions with PRC2 to induce flowering by repressing OsLFL1 in rice.
    Plant J., 2013. 73(4): p. 566-78
    [PMID:23083333]
  3. Guo X, et al.
    The rice GERMINATION DEFECTIVE 1, encoding a B3 domain transcriptional repressor, regulates seed germination and seedling development by integrating GA and carbohydrate metabolism.
    Plant J., 2013. 75(3): p. 403-16
    [PMID:23581288]
  4. Matsuno K,Fujimura T
    Do rice suspension-cultured cells treated with abscisic acid mimic developing seeds?
    Mol. Genet. Genomics, 2015. 290(4): p. 1551-62
    [PMID:25732383]