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.9KG637900.1.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: 233aa    MW: 25834 Da    PI: 6.8031
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG637900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.71.9e-1858111356
                          --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
             Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                          k++++++eq + Le  F+k+r++ + ++ +LA++lgL+ +qV vWFqNrRa++k
  Pavir.9KG637900.1.p  58 KKRRLSDEQARFLELSFRKERKLETPRKVQLAAELGLDAKQVAVWFQNRRARHK 111
                          55689***********************************************99 PP
2HD-ZIP_I/II109.32.7e-3558149293
          HD-ZIP_I/II   2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                          kkrrls+eq+++LE sF++e+kLe+ rKv+la eLgl+++qvavWFqnrRAR+k+k +E+++++L++a+da++ +n++Le+e  +++e+l
  Pavir.9KG637900.1.p  58 KKRRLSDEQARFLELSFRKERKLETPRKVQLAAELGLDAKQVAVWFQNRRARHKSKLMEEEFSKLRAAHDAVVLQNCHLETELLRMKERL 147
                          9*************************************************************************************9998 PP

          HD-ZIP_I/II  92 ke 93 
                          +e
  Pavir.9KG637900.1.p 148 AE 149
                          76 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007116.27753113IPR001356Homeobox domain
SMARTSM003899.3E-1556117IPR001356Homeobox domain
PfamPF000467.9E-1658111IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.4E-1658111IPR009057Homeodomain-like
CDDcd000864.46E-1558113No hitNo description
SuperFamilySSF466892.35E-1658120IPR009057Homeodomain-like
PRINTSPR000315.1E-68493IPR000047Helix-turn-helix motif
PROSITE patternPS00027088111IPR017970Homeobox, conserved site
PRINTSPR000315.1E-693109IPR000047Helix-turn-helix motif
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 233 aa     Download sequence    Send to blast
MGCEEDERLL FPSFAFPAES FAEADTPGSG GEQKKARQRR RRKPRPAGEG DGGDELSKKR  60
RLSDEQARFL ELSFRKERKL ETPRKVQLAA ELGLDAKQVA VWFQNRRARH KSKLMEEEFS  120
KLRAAHDAVV LQNCHLETEL LRMKERLAEA EEEKRKLIAA AAAAAAGAGS SSPSSSSFST  180
VTHHPAALVG QFGVEAEEAA DLAYMSEYAY NSYMNMMDLA PGYFGGVYDH FN*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13844RRRRKPR
24060RRKPRPAGEGDGGDELSKKRR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.76310.0callus
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, stems, leaf sheaths 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.9KG637900.1.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
GenBankEU9687900.0EU968790.1 Zea mays clone 324157 DNA binding protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025792589.11e-134homeobox-leucine zipper protein HOX12-like
SwissprotQ10QF24e-93HOX12_ORYSJ; Homeobox-leucine zipper protein HOX12
TrEMBLA0A2S3ITN01e-132A0A2S3ITN0_9POAL; Uncharacterized protein
TrEMBLA0A2T7CG921e-132A0A2T7CG92_9POAL; Uncharacterized protein
STRINGPavir.Ib00656.1.p1e-169(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP200638101
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36740.15e-32homeobox protein 40
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. Gao S,Fang J,Xu F,Wang W,Chu C
    Rice HOX12 Regulates Panicle Exsertion by Directly Modulating the Expression of ELONGATED UPPERMOST INTERNODE1.
    Plant Cell, 2016. 28(3): p. 680-95
    [PMID:26977084]