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.J615300.1.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 HB-other
Protein Properties Length: 96aa    MW: 11414 Da    PI: 11.2094
Description HB-other family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J615300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox25.62.1e-0834781354
                       HHHHHHHH...HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
           Homeobox 13 eeLeelFe...knrypsaeereeLAkklgLterqVkvWFqNrRak 54
                        +L++  +   k +yp+++++++L +++gL+ +q+ +WF N+R +
  Pavir.J615300.1.p 34 SILKQWWQqhsKWPYPTEDDKAKLVEETGLQLKQINNWFINQRKR 78
                       56666666222469*****************************87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007111.7261982IPR001356Homeobox domain
SuperFamilySSF466893.34E-172186IPR009057Homeodomain-like
SMARTSM003891.9E-102186IPR001356Homeobox domain
CDDcd000866.75E-92283No hitNo description
Gene3DG3DSA:1.10.10.602.1E-262685IPR009057Homeodomain-like
PfamPF059201.3E-183978IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 96 aa     Download sequence    Send to blast
MSISLQGLKS RIEDVREEIL RKRRAGKLPG DTTSILKQWW QQHSKWPYPT EDDKAKLVEE  60
TGLQLKQINN WFINQRKRNW HNNSQTSTLK SKRKR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1x2n_A3e-142278864Homeobox protein PKNOX1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17594RKRNWHNNSQTSTLKSKRKR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.271311e-139callus| leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in embryo at 3 days after pollination (DAP). {ECO:0000269|PubMed:10095070}.
UniprotTISSUE SPECIFICITY: Isoform 1 is expressed in roots and flowers, and at lower levels in leaf blades and leaf sheaths. Isoform 2 is expressed in roots and flowers. {ECO:0000269|PubMed:12034492}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.J615300.1.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
GenBankEU9698411e-123EU969841.1 Zea mays clone 336323 homeobox protein HD1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025793043.15e-60homeobox protein knotted-1-like 3
SwissprotQ94LW39e-60KNOS3_ORYSJ; Homeobox protein knotted-1-like 3
TrEMBLA0A2S3IUU41e-58A0A2S3IUU4_9POAL; Uncharacterized protein
TrEMBLA0A2T7CIP31e-58A0A2T7CIP3_9POAL; Uncharacterized protein
TrEMBLA0A3L6SGH49e-59A0A3L6SGH4_PANMI; Uncharacterized protein
STRINGPavir.J39623.1.p3e-61(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP56438169
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G62990.13e-56KNOTTED-like homeobox of Arabidopsis thaliana 7