PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v3.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.J245000.1.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 HD-ZIP
Protein Properties Length: 277aa    MW: 29570.8 Da    PI: 4.5615
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J245000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.13.4e-1949102356
                        --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
           Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                        k++++++eq+++Le+ Fe ++++  e++++LA+ lgL+ rqV vWFqNrRa++k
  Pavir.J245000.1.p  49 KKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWK 102
                        45689************************************************9 PP
2HD-ZIP_I/II133.76.9e-4348140193
        HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 
                        ekkrrls+eqv++LE+sFe e+kLeperK++lar+LglqprqvavWFqnrRAR+ktkqlE+dy+aL+++ydal++++++L++++++L +e+k
  Pavir.J245000.1.p  48 EKKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWKTKQLERDYAALRHSYDALRRDHDALRRDKDALLAEIK 139
                        69**************************************************************************************9998 PP

        HD-ZIP_I/II  93 e 93 
                        e
  Pavir.J245000.1.p 140 E 140
                        7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.03E-1941106IPR009057Homeodomain-like
PROSITE profilePS5007117.47544104IPR001356Homeobox domain
SMARTSM003891.5E-1847108IPR001356Homeobox domain
PfamPF000461.6E-1649102IPR001356Homeobox domain
CDDcd000861.15E-1849105No hitNo description
Gene3DG3DSA:1.10.10.603.0E-2050111IPR009057Homeodomain-like
PRINTSPR000319.4E-67584IPR000047Helix-turn-helix motif
PROSITE patternPS00027079102IPR017970Homeobox, conserved site
PRINTSPR000319.4E-684100IPR000047Helix-turn-helix motif
PfamPF021833.9E-17104145IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009637Biological Processresponse to blue light
GO:0030308Biological Processnegative regulation of cell growth
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 277 aa     Download sequence    Send to blast
MKRPRAGSPS LLPTASPDDD GYGAAAGMET EGDAEEEMVA CGGGGGGEKK RRLSAEQVRA  60
LERSFEVENK LEPERKARLA RDLGLQPRQV AVWFQNRRAR WKTKQLERDY AALRHSYDAL  120
RRDHDALRRD KDALLAEIKE LKAKLGDEEA AASFTSVKAE PAASDGPPAA GVGSSESDSS  180
AVLNDADPAV GAAEAPVPEV QGALLPAPTG AAATSHGGAF FHGGFLKVEE DETGFLDDDE  240
PCGGFFAVEQ PPPMAWWTEP TAGTELGWMR ARTWDL*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17379ERKARLA
296104RRARWKTKQ
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.16230.0callus| leaf| root| stem
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00051PBMTransfer from AT4G40060Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0342570.0BT034257.1 Zea mays full-length cDNA clone ZM_BFc0009H14 mRNA, complete cds.
GenBankBT0390620.0BT039062.1 Zea mays full-length cDNA clone ZM_BFb0367N11 mRNA, complete cds.
GenBankBT0553740.0BT055374.1 Zea mays full-length cDNA clone ZM_BFb0091J03 mRNA, complete cds.
GenBankJX4699290.0JX469929.1 Zea mays subsp. mays clone UT3187 HB-type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004957072.11e-162PREDICTED: homeobox-leucine zipper protein HOX4-like
SwissprotQ6K4981e-125HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4
SwissprotQ9XH371e-125HOX4_ORYSI; Homeobox-leucine zipper protein HOX4
TrEMBLK3ZW401e-162K3ZW40_SETIT; Uncharacterized protein
STRINGSi030822m1e-161(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP30093482
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G01470.12e-33homeobox 1