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.9NG123600.1.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 TALE
Protein Properties Length: 356aa    MW: 39232.2 Da    PI: 6.9486
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG123600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox26.98e-092833182055
                          HHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
             Homeobox  20 eknrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                          +k +yps++++  LA+++gL+ +q+ +WF N+R ++
  Pavir.9NG123600.1.p 283 YKWPYPSETQKVALAESTGLDLKQINNWFINQRKRH 318
                          5679*****************************885 PP
2ELK37.16.6e-13238259122
                  ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                          ELKh+Ll+KYsgyL+sLkqE+s
  Pavir.9NG123600.1.p 238 ELKHHLLKKYSGYLSSLKQELS 259
                          9*******************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012552.3E-20101145IPR005540KNOX1
PfamPF037903.1E-22102144IPR005540KNOX1
SMARTSM012562.4E-27152203IPR005541KNOX2
PfamPF037911.8E-22158201IPR005541KNOX2
SMARTSM01188570161181IPR005539ELK domain
PfamPF037898.0E-10238259IPR005539ELK domain
SMARTSM011884.9E-7238259IPR005539ELK domain
PROSITE profilePS5121311.331238258IPR005539ELK domain
PROSITE profilePS5007112.487258321IPR001356Homeobox domain
SuperFamilySSF466891.28E-19259334IPR009057Homeodomain-like
SMARTSM003894.2E-12260325IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.607.3E-28263323IPR009057Homeodomain-like
CDDcd000868.48E-12270322No hitNo description
PfamPF059206.7E-16278317IPR008422Homeobox KN domain
PROSITE patternPS000270296319IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 356 aa     Download sequence    Send to blast
MEEITHHFGV GASGGHGYGH GQHHHHHNHP WGSSLSAVVA PPPQPPPSAG LPLTLNTAAT  60
VHSGASDGNP VLQLANGGSL LDACIKAKEP SSSSLYAGDV EAIKAKIISH PHYYSLLAAY  120
LECQKVGAPP EVSARLTAMA QELEARQRTA LGGLGAATEP ELDQFMEAYH EMLVKFREEL  180
TRPLQEAMEF MRRVESQLSS LSISGRSLRN ILSSGSSEED QEGSGGETEL DAHGVDQELK  240
HHLLKKYSGY LSSLKQELSK KKKKGKLPKE ARQQLLSWWD LHYKWPYPSE TQKVALAEST  300
GLDLKQINNW FINQRKRHWK PSEEMHHLMM DGYHPTGAFY MDGHFINDGG LYRLG*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.13230.0stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout apical and vegetative meristem during development. Down-regulated as leaves and floral organs are initiated. {ECO:0000269|PubMed:1362381}.
UniprotTISSUE SPECIFICITY: Expressed in apical meristems of vegetative and floral stems as well as in the underlying ground meristem. Specifically expressed in vascular bundles developing both in the leaf and stem. Very low levels of expression in leaves.
Functional Description ? help Back to Top
Source Description
UniProtBinds to RNA (PubMed:17965274). Possible transcription factor that regulates genes involved in development. Mutations in KN-1 alter leaf development. Foci of cells along the lateral vein do not differentiate properly but continue to divide, forming knots. May participate in the switch from indeterminate to determinate cell fates. Probably binds to the DNA sequence 5'-TGAC-3'. {ECO:0000269|PubMed:17965274}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG123600.1.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
GenBankDQ3174180.0DQ317418.1 Panicum miliaceum KNOTTED1 homeodomain protein (KN1) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004981913.10.0homeotic protein knotted-1
SwissprotP243450.0KN1_MAIZE; Homeotic protein knotted-1
TrEMBLA0A368SF910.0A0A368SF91_SETIT; Uncharacterized protein
STRINGPavir.Ia00733.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP98863145
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08150.18e-87KNOTTED-like from Arabidopsis thaliana
Publications ? help Back to Top
  1. Lowe B,Mathern J,Hake S
    Active Mutator elements suppress the knotted phenotype and increase recombination at the Kn1-O tandem duplication.
    Genetics, 1992. 132(3): p. 813-22
    [PMID:1334895]
  2. Sinha N,Hake S
    Mutant characters of knotted maize leaves are determined in the innermost tissue layers.
    Dev. Biol., 1990. 141(1): p. 203-10
    [PMID:2391001]
  3. Chen H,Jackson D,Kim JY
    Identification of evolutionarily conserved amino acid residues in homeodomain of KNOX proteins for intercellular trafficking.
    Plant Signal Behav, 2014. 9(3): p. e28355
    [PMID:24603432]
  4. Sinha NR,Williams RE,Hake S
    Overexpression of the maize homeo box gene, KNOTTED-1, causes a switch from determinate to indeterminate cell fates.
    Genes Dev., 1993. 7(5): p. 787-95
    [PMID:7684007]
  5. Greene B,Walko R,Hake S
    Mutator insertions in an intron of the maize knotted1 gene result in dominant suppressible mutations.
    Genetics, 1994. 138(4): p. 1275-85
    [PMID:7896105]
  6. Mathern J,Hake S
    Mu element-generated gene conversions in maize attenuate the dominant knotted phenotype.
    Genetics, 1997. 147(1): p. 305-14
    [PMID:9286690]