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.9NG043500.1.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 C2H2
Protein Properties Length: 280aa    MW: 28707.4 Da    PI: 8.847
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG043500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.26.2e-0595117123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC+ CgksFs+   L  H  +H
  Pavir.9NG043500.1.p  95 FKCSVCGKSFSSYQALGGHKTSH 117
                          89**********99998888777 PP
2zf-C2H212.40.00047174196123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          ++C++C+k F++   L  H r+H
  Pavir.9NG043500.1.p 174 HRCSICHKEFPTGQALGGHKRKH 196
                          79*******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003550.004695117IPR015880Zinc finger, C2H2-like
SuperFamilySSF576674.07E-995117No hitNo description
PfamPF139124.6E-1395119IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.7E-495118IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.46695122IPR007087Zinc finger, C2H2
PROSITE patternPS00028097117IPR007087Zinc finger, C2H2
SuperFamilySSF576674.07E-9169196No hitNo description
PfamPF139121.3E-12173198IPR007087Zinc finger, C2H2
SMARTSM003550.043174196IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.058174196IPR007087Zinc finger, C2H2
PROSITE patternPS000280176196IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 280 aa     Download sequence    Send to blast
MTSMELLHAV IPEKQREDAA AALAPATTTS SSATATSGDE GSHVPQGWTK RKRSRRQRSE  60
EENLALCLLM LSRGGNHRVQ APPPVPAAAP AAAEFKCSVC GKSFSSYQAL GGHKTSHRAK  120
LPTPPASAGA PAAPVVEAPA LITVVVPPPI EVREPATSST AASSDGAAAS SRVHRCSICH  180
KEFPTGQALG GHKRKHYDGG AGSAAAAAST DLLAAAAAAE TSEVGSSGNG SSAARAFDLN  240
LPAVPEFVFR CGKAGKMWEQ DEEVQSPLAF KKPRLLMTA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.14490.0callus| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During germination, abundant up to fourteen hours after imbibition. Levels decrease slightly after this and then gradually increase again. {ECO:0000269|PubMed:8223628}.
UniprotTISSUE SPECIFICITY: Highest levels in the root apex of wheat seedlings, lowest levels in leaf proximal region. {ECO:0000269|PubMed:8223628}.
Functional Description ? help Back to Top
Source Description
UniProtPotential transcription factor which binds the nonamer motif 5'-CATCCAACG-3'. Possibly involved in regulating transcription of the histone H3 and H4 genes. {ECO:0000269|PubMed:8223628}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG043500.1.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
GenBankEU9677900.0EU967790.1 Zea mays clone 306092 zinc-finger protein 1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002463836.11e-126zinc finger protein 1
SwissprotQ424301e-103ZFP1_WHEAT; Zinc finger protein 1
TrEMBLA0A2T7C0N21e-125A0A2T7C0N2_9POAL; Uncharacterized protein
STRINGSb01g007170.11e-125(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP102236113
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G19580.23e-22zinc-finger protein 2