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.3KG096800.1.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: 372aa    MW: 41791.4 Da    PI: 7.7776
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG096800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H213.20.0002687109323
                          ET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   3 Cp..dCgksFsrksnLkrHirtH 23 
                          C+  +Cgk+F + s L++H  +H
  Pavir.3KG096800.1.p  87 CSyeNCGKTFVDVSALRKHAHVH 109
                          77779**************9887 PP
2zf-C2H220.41.4e-06114138123
                          EEET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                          y C+  +Cgk F ++s LkrH  tH
  Pavir.3KG096800.1.p 114 YICNepNCGKKFVDSSKLKRHYLTH 138
                          899999****************999 PP
3zf-C2H2201.8e-06144168123
                          EEET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                          ++Cp   Cgk Fs   nL++H++tH
  Pavir.3KG096800.1.p 144 FVCPhpGCGKAFSLDFNLRSHLKTH 168
                          89**********************9 PP
4zf-C2H216.62.2e-05174198123
                          EEET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                          + Cp   Cgk+F++ s L++H ++H
  Pavir.3KG096800.1.p 174 HICPfpACGKRFTSDSKLRVHVKSH 198
                          5799999****************99 PP
5zf-C2H217.21.4e-05235260123
                          EEET..TTTEEESSHHHHHHHHHH.T CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                          y+Cp   C+k + +++ L+ H++t H
  Pavir.3KG096800.1.p 235 YVCPyeGCDKAYIHSYKLNLHLKTqH 260
                          99*********************999 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.609.1E-1380108IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.01385109IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.84385114IPR007087Zinc finger, C2H2
PROSITE patternPS00028087109IPR007087Zinc finger, C2H2
SuperFamilySSF576676.86E-988138No hitNo description
Gene3DG3DSA:3.30.160.609.8E-14109134IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0013114138IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015714.295114143IPR007087Zinc finger, C2H2
PROSITE patternPS000280116138IPR007087Zinc finger, C2H2
SuperFamilySSF576671.93E-12125177No hitNo description
Gene3DG3DSA:3.30.160.604.6E-19135169IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.926144173IPR007087Zinc finger, C2H2
SMARTSM003558.3E-4144168IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280146168IPR007087Zinc finger, C2H2
SuperFamilySSF576677.71E-5168199No hitNo description
Gene3DG3DSA:3.30.160.608.7E-9172198IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.616174203IPR007087Zinc finger, C2H2
SMARTSM003550.0032174198IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280176198IPR007087Zinc finger, C2H2
SuperFamilySSF576671.4E-6228260No hitNo description
Gene3DG3DSA:3.30.160.601.0E-9232260IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501578.85235268IPR007087Zinc finger, C2H2
SMARTSM003550.0036235260IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280237260IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 372 aa     Download sequence    Send to blast
MEYPAAAAGS GGYKYYYPPQ QPVRRPPRPA ARWVKQWIPM DLASSGSKCS LFKWVREDGH  60
RSSKENPKVL EAEAPKPEPT TEILFLCSYE NCGKTFVDVS ALRKHAHVHN EKQYICNEPN  120
CGKKFVDSSK LKRHYLTHTG QKDFVCPHPG CGKAFSLDFN LRSHLKTHAL ENYHICPFPA  180
CGKRFTSDSK LRVHVKSHEK TGTPVTVQHT PPVEKTYSAP KPSTPATTSF PDRPYVCPYE  240
GCDKAYIHSY KLNLHLKTQH PEHGQEENGK LGASGQHGVN ETSYQYNYAE VGDTAPNPKR  300
SKTHKVHSSK VYNTKISTSM PSNISGVKNQ WSGKATYEDD SEETEEDGDN NIEDGWRYGN  360
NADDEETQDE D*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ubd_C3e-33782582119PROTEIN (YY1 ZINC FINGER DOMAIN)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.81050.0callus| leaf| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Rapidly induced following seed germination, especially in tender cotyledons. {ECO:0000269|PubMed:26961720}.
UniprotTISSUE SPECIFICITY: Mostly expressed in flowers, to a lower extent in seedlings, stems and leaves, and, at low levels, in roots and senescent leaves. {ECO:0000269|PubMed:26961720}.
Functional Description ? help Back to Top
Source Description
UniProtDual-function transcription factor with both repression and activation activities. Binds to 5'-CCATATT-3' motif in target gene promoters (e.g. ABR1) (PubMed:26961720). Binds also to G-rich DNA motif 5'-GGGGGCAGTGG-3' (PubMed:22508367). Regulates the expression of genes involved in diverse cellular pathways, including glucose metabolism, photosynthesis, phototropism and stress response (e.g. salt, drought and osmotic stress) (PubMed:22508367, PubMed:26961720). Regulates plant immunity, especially during necrotrophic fungal infection (e.g. B.cinerea) (PubMed:24451981). Binds to ABR1 promoter and promotes its expression, thus negatively regulating the abscisic acid (ABA) signaling pathway. Represses ABA- and salt-responsive genes expression (PubMed:26961720). {ECO:0000269|PubMed:22508367, ECO:0000269|PubMed:24451981, ECO:0000269|PubMed:26961720}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG096800.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by abscisic acid (ABA) in an ABI1- and ABI4-dependent manner. Stimulated by stress conditions including high salt, osmotic stress (e.g. mannitol) and dehydration. May be induced by ABI4 but repressed by ABR1. Repressed by darkness but induced by light. {ECO:0000269|PubMed:26961720}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0371600.0BT037160.1 Zea mays full-length cDNA clone ZM_BFb0157B04 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004960546.10.0zinc finger transcription factor YY1
SwissprotQ2V3L31e-106YY1_ARATH; Zinc finger transcription factor YY1
TrEMBLK3Z7430.0K3Z743_SETIT; Uncharacterized protein
STRINGPavir.Ca00534.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20943899
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G06634.11e-102C2H2 family protein
Publications ? help Back to Top
  1. Kumekawa N,Hosouchi T,Tsuruoka H,Kotani H
    The size and sequence organization of the centromeric region of Arabidopsis thaliana chromosome 4.
    DNA Res., 2001. 8(6): p. 285-90
    [PMID:11853315]
  2. Li T,Wu XY,Li H,Song JH,Liu JY
    A Dual-Function Transcription Factor, AtYY1, Is a Novel Negative Regulator of the Arabidopsis ABA Response Network.
    Mol Plant, 2016. 9(5): p. 650-661
    [PMID:26961720]
  3. Wu XY,Li T
    A Casein Kinase II Phosphorylation Site in AtYY1 Affects Its Activity, Stability, and Function in the ABA Response.
    Front Plant Sci, 2017. 8: p. 323
    [PMID:28348572]