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.9KG252400.1.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: 297aa    MW: 32516.3 Da    PI: 4.7568
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG252400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.84.3e-1970123356
                          --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          k++++ ++q+++Le+ Fe +++++ e+++++A+ l+L  rqV vWFqNrRa++k
  Pavir.9KG252400.1.p  70 KKRRLAADQVRALERSFEVDNKLDPERKARIAHDLSLHPRQVAVWFQNRRARWK 123
                          4557899**********************************************9 PP
2HD-ZIP_I/II1253.4e-4069161193
          HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 
                          ekkrrl+++qv++LE+sFe ++kL+perK+++a++L l+prqvavWFqnrRAR+ktkq+E+d++aL++++dal++e ++L++++++L++e
  Pavir.9KG252400.1.p  69 EKKRRLAADQVRALERSFEVDNKLDPERKARIAHDLSLHPRQVAVWFQNRRARWKTKQIERDFAALRARHDALRAECDALRRDKDTLAAE 158
                          69**************************************************************************************99 PP

          HD-ZIP_I/II  91 lke 93 
                          ++e
  Pavir.9KG252400.1.p 159 IRE 161
                          986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.602.0E-1949126IPR009057Homeodomain-like
SuperFamilySSF466891.88E-1860127IPR009057Homeodomain-like
PROSITE profilePS5007116.34265125IPR001356Homeobox domain
SMARTSM003894.3E-1968129IPR001356Homeobox domain
PfamPF000462.2E-1670123IPR001356Homeobox domain
CDDcd000864.62E-1670126No hitNo description
PROSITE patternPS000270100123IPR017970Homeobox, conserved site
PfamPF021837.8E-15125166IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 297 aa     Download sequence    Send to blast
MKRPTSRGSS MVSQATTDQQ EDSCRYMERH GVDGDGGAAA AERDDMEAGA YDEEDDDDEQ  60
AGSRGGLGEK KRRLAADQVR ALERSFEVDN KLDPERKARI AHDLSLHPRQ VAVWFQNRRA  120
RWKTKQIERD FAALRARHDA LRAECDALRR DKDTLAAEIR ELREKVERQM DVKLESAEEM  180
LPVAAGTAAA AAAAAVYKDG STDSDSSAVF NEEASPYSGA AFDHQHQHQF HPSFTSFTSF  240
LASSSSLSSS FPSSLYHGVS HLDQEADGFL SATAADGFFA EEQGAGLGSW YGSEGW*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1117125RRARWKTKQ
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.178190.0callus| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, stems, leaf blades and panicles. {ECO:0000269|PubMed:17999151}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9KG252400.1.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
GenBankBT0420270.0BT042027.1 Zea mays full-length cDNA clone ZM_BFb0113G23 mRNA, complete cds.
GenBankKJ7275560.0KJ727556.1 Zea mays clone pUT5416 HB transcription factor (HB127) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025792352.11e-168homeobox-leucine zipper protein HOX8-like isoform X1
SwissprotQ338Z71e-94HOX8_ORYSJ; Homeobox-leucine zipper protein HOX8
TrEMBLA0A3L6SDJ81e-170A0A3L6SDJ8_PANMI; Homeobox-leucine zipper protein HOX8-like isoform X1
STRINGPavir.J35191.1.p1e-170(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP42833170
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G40060.17e-34homeobox protein 16
Publications ? help Back to Top
  1. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]