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.5NG441100.1.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: 293aa    MW: 32486.9 Da    PI: 9.0957
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG441100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B354.91.5e-1774169294
                          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 ++ r W++k++y  ++ks++yvl+ ++ ++ ka++L++gDf+v++ 
  Pavir.5NG441100.1.p  74 QKELRNSDVNQLGRIVLPKKEAESYlpilL-S-KDGKSLCMYDlLNARLWTFKYRYwpNNKSRMYVLE-NTGDYIKAHELQQGDFIVIYK 160
                          7999***********************852.3.35678*****8888*********89999999**99.********************5 PP

                          -SSSEE..EE CS
                   B3  85 dgrsefelvv 94 
                          d+  + ++v+
  Pavir.5NG441100.1.p 161 DD-GNDRFVI 169
                          53.3333355 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd100171.39E-2372169No hitNo description
Gene3DG3DSA:2.40.330.101.0E-2372179IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS508639.773175IPR003340B3 DNA binding domain
SuperFamilySSF1019365.69E-1973169IPR015300DNA-binding pseudobarrel domain
SMARTSM010191.8E-1273175IPR003340B3 DNA binding domain
PfamPF023628.0E-1474169IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008284Biological Processpositive regulation of cell proliferation
GO:0009733Biological Processresponse to auxin
GO:0010116Biological Processpositive regulation of abscisic acid biosynthetic process
GO:0010262Biological Processsomatic embryogenesis
GO:0010373Biological Processnegative regulation of gibberellin biosynthetic process
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 293 aa     Download sequence    Send to blast
MAGISKRRTS PASTSSSSGD GIPRRITRKP RSVRRGPRGA ARRPPAPRPV HALDLNTAAL  60
DPDHYATGLR VLLQKELRNS DVNQLGRIVL PKKEAESYLP ILLSKDGKSL CMYDLLNARL  120
WTFKYRYWPN NKSRMYVLEN TGDYIKAHEL QQGDFIVIYK DDGNDRFVIG AKKAGYEQTA  180
TVPQIHEHMH ITAATLPAPQ VFHDYAAPVA PEADMLALVP QADEIFDGIL NSLPEIPVAN  240
VRYSDFFDPF GDSMDMANPL GSNHSVNLAT HFHDEKAGSS SFPYYPKSGP LM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9b_A5e-40691841116B3 domain-containing transcription factor FUS3
6j9b_D5e-40691841116B3 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00382DAPTransfer from AT3G26790Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG441100.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004969734.10.0B3 domain-containing protein LFL1
SwissprotA4LBC01e-114LFL1_ORYSJ; B3 domain-containing protein LFL1
TrEMBLK3XRB80.0K3XRB8_SETIT; Uncharacterized protein
STRINGPavir.Eb02614.1.p0.0(Panicum virgatum)
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
AT3G26790.14e-41B3 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]