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 Rsa1.0_18758.1_g00001.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C2H2
Protein Properties Length: 189aa    MW: 21865 Da    PI: 8.3257
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_18758.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.40.0016789323
                             ET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2  3 Cp..dCgksFsrksnLkrHirtH 23
                             C+   Cgk+F + s L++H   H
  Rsa1.0_18758.1_g00001.1 67 CSyeGCGKMFFDVSALRKHSHIH 89
                             77779**************7766 PP
2zf-C2H217.51.1e-0594118123
                              EEET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                              y+C    C+k F ++s LkrH   H
  Rsa1.0_18758.1_g00001.1  94 YVCDypGCDKKFLDSSKLKRHWLIH 118
                              89*******************9988 PP
3zf-C2H221.85e-07124148123
                              EEET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                              ++C+   Cgk Fs   nL++H++tH
  Rsa1.0_18758.1_g00001.1 124 FVCTyeGCGKAFSLDFNLRSHMKTH 148
                              89**********************9 PP
4zf-C2H214.88.5e-05154179123
                              EEET..TTTEEESSHHHHHHHHHH.T CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                              + Cp   Cgk++ + + Lk+H    H
  Rsa1.0_18758.1_g00001.1 154 HICPysGCGKRYAHEYKLKNHVAAyH 179
                              68*******************87666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.605.0E-156091IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0156589IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.6376594IPR007087Zinc finger, C2H2
PROSITE patternPS0002806789IPR007087Zinc finger, C2H2
SuperFamilySSF576672.87E-968118No hitNo description
Gene3DG3DSA:3.30.160.606.6E-1592114IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.40494123IPR007087Zinc finger, C2H2
SMARTSM003550.002594118IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028096118IPR007087Zinc finger, C2H2
SuperFamilySSF576677.47E-15105159No hitNo description
Gene3DG3DSA:3.30.160.604.2E-20115150IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003557.2E-4124148IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.757124153IPR007087Zinc finger, C2H2
PROSITE patternPS000280126148IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.4E-7151175IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0074154179IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280156179IPR007087Zinc 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: 189 aa     Download sequence    Send to blast
IVKSKAPAVK WIKEWVPQDI VATGGKCYLH KWVTEETVKR LKETEKEPTT DVPDPEPEPT  60
SEILFLCSYE GCGKMFFDVS ALRKHSHIHG ERQYVCDYPG CDKKFLDSSK LKRHWLIHTG  120
ARDFVCTYEG CGKAFSLDFN LRSHMKTHSQ ENYHICPYSG CGKRYAHEYK LKNHVAAYHE  180
KNVLVTMHS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ubd_C8e-39671788117PROTEIN (YY1 ZINC FINGER DOMAIN)
Search in ModeBase
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
PlantRegMapRsa1.0_18758.1_g00001.1
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
GenBankAC2411883e-63AC241188.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH120G08, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018452281.11e-135PREDICTED: uncharacterized zinc finger protein At4g06634
RefseqXP_018452282.11e-135PREDICTED: uncharacterized zinc finger protein At4g06634
SwissprotQ2V3L31e-105YY1_ARATH; Zinc finger transcription factor YY1
TrEMBLA0A0D2ZRD71e-131A0A0D2ZRD7_BRAOL; Uncharacterized protein
TrEMBLA0A3N6QHG71e-131A0A3N6QHG7_BRACR; Uncharacterized protein
TrEMBLA0A3P6EJX01e-131A0A3P6EJX0_BRAOL; Uncharacterized protein
STRINGBo00829s040.11e-132(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58592846
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G06634.11e-105C2H2 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]