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.1NG019900.1.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 Whirly
Protein Properties Length: 230aa    MW: 25328.1 Da    PI: 10.045
Description Whirly family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG019900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Whirly187.52.2e-58541912139
               Whirly   2 vyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvr 91 
                          v+k+kaal++++++p+f++++sg+ +++r+G+++l++ +a+++rkyd+ kkq fals+tev++l+ l++ esceffhdp++k+s+eG+v+
  Pavir.1NG019900.1.p  54 VFKGKAALSIHPILPSFSKMESGAYRMNRNGSVMLTFLPAVGQRKYDYTKKQLFALSPTEVGSLICLGPAESCEFFHDPSMKSSHEGQVK 143
                          9***************************************************************************************** PP

               Whirly  92 kalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139
                          k+l++ Pl  GsG+fvn++v n+++k+ +++svP++kaefav+r++l+
  Pavir.1NG019900.1.p 144 KSLSLTPLGSGSGYFVNITVLNNVQKTTDRLSVPITKAEFAVMRTALS 191
                          *********************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.30.31.101.2E-7142207IPR009044ssDNA-binding transcriptional regulator
SuperFamilySSF544475.89E-6945229IPR009044ssDNA-binding transcriptional regulator
PfamPF085361.8E-5754188IPR013742Plant transcription factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006281Biological ProcessDNA repair
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005739Cellular Componentmitochondrion
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 230 aa     Download sequence    Send to blast
MLRIYRFLPS ASRRGFDLKE PLWSGSLTFQ QAVSTSAGNL DENLSGKKFA SYTVFKGKAA  60
LSIHPILPSF SKMESGAYRM NRNGSVMLTF LPAVGQRKYD YTKKQLFALS PTEVGSLICL  120
GPAESCEFFH DPSMKSSHEG QVKKSLSLTP LGSGSGYFVN ITVLNNVQKT TDRLSVPITK  180
AEFAVMRTAL SFALPHIMGW DQVLTHHPAP LASNKPRMEG PHPDSEWER*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4kop_A1e-75452068169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_B1e-75452068169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_C1e-75452068169Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_D1e-75452068169Single-stranded DNA-binding protein WHY2, mitochondrial
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.188990.0callus| leaf| root| stem
Functional Description ? help Back to Top
Source Description
UniProtSingle-stranded DNA-binding protein that may be involved in the maintenance of mitochondrial genome stability by preventing break-induced DNA rearrangements. {ECO:0000269|PubMed:21911368}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG019900.1.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
GenBankEU9634570.0EU963457.1 Zea mays clone 262942 DNA binding protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025798789.11e-158single-stranded DNA-binding protein WHY2, mitochondrial
SwissprotD9J0342e-76WHY2_SOLTU; Single-stranded DNA-binding protein WHY2, mitochondrial
TrEMBLA0A2S3GLT51e-157A0A2S3GLT5_9POAL; Uncharacterized protein
STRINGPavir.Aa03265.1.p1e-161(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP30123885
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71260.11e-70WHIRLY 2