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.2NG220400.2.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: 351aa    MW: 38597.6 Da    PI: 6.6607
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG220400.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox277.9e-092783132055
                          HHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
             Homeobox  20 eknrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                          +k +yps++++  LA+++gL+ +q+ +WF N+R ++
  Pavir.2NG220400.2.p 278 YKWPYPSETQKVALAESTGLDLKQINNWFINQRKRH 313
                          5679*****************************885 PP
2ELK37.26.4e-13233254122
                  ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                          ELKh+Ll+KYsgyL+sLkqE+s
  Pavir.2NG220400.2.p 233 ELKHHLLKKYSGYLSSLKQELS 254
                          9*******************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012552.9E-2093137IPR005540KNOX1
PfamPF037903.3E-2294136IPR005540KNOX1
SMARTSM012562.4E-27144195IPR005541KNOX2
PfamPF037911.8E-22150193IPR005541KNOX2
SMARTSM01188570153173IPR005539ELK domain
PROSITE profilePS5121311.331233253IPR005539ELK domain
PfamPF037897.9E-10233254IPR005539ELK domain
SMARTSM011884.9E-7233254IPR005539ELK domain
PROSITE profilePS5007112.487253316IPR001356Homeobox domain
SuperFamilySSF466891.58E-19254329IPR009057Homeodomain-like
SMARTSM003894.2E-12255320IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.607.2E-28258318IPR009057Homeodomain-like
CDDcd000868.16E-12265317No hitNo description
PfamPF059206.5E-16273312IPR008422Homeobox KN domain
PROSITE patternPS000270291314IPR017970Homeobox, 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:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 351 aa     Download sequence    Send to blast
MEEITHQYFG VGASGHGQHH HLWGSSLSAV VAPPPPQPPS AGLPLTLNTA ATVNSGANGG  60
NPVLQLANGG SLLDACIKAK EPSSSSPYAG DVEAIKAKIM SHPHYYSLLA AYLECQKVGA  120
PPEVSARLAA MTQELEARQR TALGGLGAAT EPELDQFMEA YHEMLVKFRE ELTRPLQEAM  180
EFMRRVESQL SSLSISGGSL RNILSSGSSE EDQEGSGGET ELPEIDAHGV DQELKHHLLK  240
KYSGYLSSLK QELSKKKKKG KLPKEARQQL LSWWDLHYKW PYPSETQKVA LAESTGLDLK  300
QINNWFINQR KRHWKPSEEM HHLMMDGYHT TGAFYMDGHF INDGGLYRLG *
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00675ChIP-seqTransfer from GRMZM2G017087Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG220400.2.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
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.J00864.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08150.12e-88KNOTTED-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]