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.9NG050700.1.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: 276aa    MW: 28462.1 Da    PI: 8.6171
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG050700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.26.1e-0593115123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC+ CgksFs+   L  H  +H
  Pavir.9NG050700.1.p  93 FKCSVCGKSFSSYQALGGHKTSH 115
                          89**********99998888777 PP
2zf-C2H212.40.00046173195123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          ++C++C+k F++   L  H r+H
  Pavir.9NG050700.1.p 173 HRCSICHKEFPTGQALGGHKRKH 195
                          79*******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5015712.46693120IPR007087Zinc finger, C2H2
SuperFamilySSF576673.86E-993115No hitNo description
PfamPF139124.6E-1393117IPR007087Zinc finger, C2H2
SMARTSM003550.004693115IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.7E-493116IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028095115IPR007087Zinc finger, C2H2
SuperFamilySSF576673.86E-9168195No hitNo description
PfamPF139121.3E-12172197IPR007087Zinc finger, C2H2
PROSITE profilePS501579.058173195IPR007087Zinc finger, C2H2
SMARTSM003550.043173195IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280175195IPR007087Zinc 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: 276 aa     Download sequence    Send to blast
MTSMELLHAV IPEKQREDSL APALTTTSSS ATATSGDEGS HVPQGWAKRK RSRRQRSEEE  60
NLALCLLMLS RGGNHRVQAP PPVPAAPPAA AEFKCSVCGK SFSSYQALGG HKTSHRAKLP  120
TPPASAGAPA APVVEAPAPI TVVVPPPIEV AREPATSSTA ASSDGAAASS RVHRCSICHK  180
EFPTGQALGG HKRKHYDGGA GSAAAAASTD LLAAAETSEV GSSGNGSSAA RAFDLNLPAV  240
PEFVFRCGKA GKMWEEDEEV QSPLAFKKPR LLMTA*
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.9NG050700.1.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-128zinc finger protein 1
SwissprotQ424301e-104ZFP1_WHEAT; Zinc finger protein 1
TrEMBLC5X0311e-127C5X031_SORBI; Uncharacterized protein
STRINGPavir.J25179.1.p0.0(Panicum virgatum)
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
AT3G19580.22e-23zinc-finger protein 2