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.5NG442900.1.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 MYB_related
Protein Properties Length: 286aa    MW: 31102.3 Da    PI: 9.867
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG442900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding35.71.9e-11556147
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHHH CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqky 47
                         +++WT eE++ l ++v ++G g W+tI +          R+  ++k++w+++
  Pavir.5NG442900.1.p  5 KQKWTSEEEDALRRGVLKHGAGKWRTIQKDPEfspvlSSRSNIDLKDKWRNL 56
                         79***********************************9************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129412.672160IPR017930Myb domain
SuperFamilySSF466892.24E-15258IPR009057Homeodomain-like
SMARTSM007172.8E-7459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.8E-14556IPR009057Homeodomain-like
PfamPF002494.3E-8556IPR001005SANT/Myb domain
CDDcd116604.23E-20656No hitNo description
SMARTSM005261.4E-11108173IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.105.8E-12109180IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150422.472110179IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467856.65E-14110188IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF005381.8E-8112171IPR005818Linker histone H1/H5, domain H15
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0000786Cellular Componentnucleosome
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 286 aa     Download sequence    Send to blast
MGAPKQKWTS EEEDALRRGV LKHGAGKWRT IQKDPEFSPV LSSRSNIDLK DKWRNLSFSA  60
SGMGSRDKTK RTTGPSCSPS STSQASAVPV ANKVAEAPPD AEKKQQEVKP QPKYGAMILE  120
ALSELNEPNG TELTEICSFI EQKHGVPTTF RRAIGTKLRR LVDSKKIEKV DTKSYRLTDS  180
FATRTPAPIK ASAPKQKDPS KPSKVSKNLG LFATSSPALE AAIAAAAKVA DAEVKAHDAH  240
DQMMEAERIL KMAEETESLL TIAAEIYDRC SRGEITTLNP AQREA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.115110.0callus| leaf| stem
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats, but may also bind to the single telomeric strand. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00652PBMTransfer from LOC_Os01g51154Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG442900.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025815372.11e-167glycylpeptide N-tetradecanoyltransferase 1
SwissprotQ6WLH41e-135SMH3_MAIZE; Single myb histone 3
TrEMBLA0A2S3HSG41e-174A0A2S3HSG4_9POAL; Uncharacterized protein
TrEMBLA0A2T7DHV41e-174A0A2T7DHV4_9POAL; Uncharacterized protein
STRINGPavir.Eb02802.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP92473442
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.34e-40telomere repeat binding factor 1
Publications ? help Back to Top
  1. Soderlund C, et al.
    Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs.
    PLoS Genet., 2009. 5(11): p. e1000740
    [PMID:19936069]
  2. Schnable PS, et al.
    The B73 maize genome: complexity, diversity, and dynamics.
    Science, 2009. 326(5956): p. 1112-5
    [PMID:19965430]