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_00552.1_g00021.1
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: 381aa    MW: 43497.4 Da    PI: 7.2405
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00552.1_g00021.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.22.9e-05116140123
                              EEET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                              y+C    C+k F ++s LkrH   H
  Rsa1.0_00552.1_g00021.1 116 YVCDypGCDKKFLDSSKLKRHWLIH 140
                              89*******************9988 PP
2zf-C2H220.51.3e-06146170123
                              EEET..TTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                              ++C+   Cgk Fs   nL++H++tH
  Rsa1.0_00552.1_g00021.1 146 FVCTyeGCGKAFSLDFNLRSHMKTH 170
                              89**********************9 PP
3zf-C2H214.10.00014176201123
                              EEET..TTTEEESSHHHHHHHHHH.T CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                              + Cp   Cgk++ + + Lk+H++  H
  Rsa1.0_00552.1_g00021.1 176 HICPysGCGKRYAHEYKLKNHLSAyH 201
                              68*******************99777 PP
4zf-C2H215.74.1e-05240265123
                              EEET..TTTEEESSHHHHHHHHHH.T CS
                  zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                              y+Cp   C+k + + + Lk H+++ H
  Rsa1.0_00552.1_g00021.1 240 YTCPyeGCDKAYIHEYKLKLHLKReH 265
                              9**********************999 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.604.5E-1382113IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.01387111IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.32587116IPR007087Zinc finger, C2H2
PROSITE patternPS00028089111IPR007087Zinc finger, C2H2
SuperFamilySSF576673.4E-890140No hitNo description
Gene3DG3DSA:3.30.160.601.8E-14114136IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0025116140IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.404116145IPR007087Zinc finger, C2H2
PROSITE patternPS000280118140IPR007087Zinc finger, C2H2
SuperFamilySSF576671.68E-13127181No hitNo description
Gene3DG3DSA:3.30.160.606.4E-19137172IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003557.2E-4146170IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.884146175IPR007087Zinc finger, C2H2
PROSITE patternPS000280148170IPR007087Zinc finger, C2H2
SMARTSM003550.011176201IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.5E-7176197IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501578.663176206IPR007087Zinc finger, C2H2
PROSITE patternPS000280178201IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.0E-9235262IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.05E-5237263No hitNo description
SMARTSM003550.0024240265IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.723240270IPR007087Zinc finger, C2H2
PROSITE patternPS000280242265IPR007087Zinc 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: 381 aa     Download sequence    Send to blast
MEQHLQYPYQ NPFERRPILK SSKAPPAVRW IKDWVPQDIV ATGAKCYLRK WVTEETLKTL  60
KEKEIEPTTT TADGSDPDSE PTSEILFLCS YDGCGKIFFD VNALRKHSHV HGERQYVCDY  120
PGCDKKFLDS SKLKRHWLIH TGARDFVCTY EGCGKAFSLD FNLRSHMKTH SQANYHICPY  180
SGCGKRYAHE YKLKNHLSAY HEKNAAGETP TYTPPAEKVS RTPKTPAATV YGSASLERPY  240
TCPYEGCDKA YIHEYKLKLH LKREHLPEEN SKTPNLEEGS DQDVYRKHAA GNGKSQRHKQ  300
QSRAKPKMKT TPPPAKAVKK GSTSSPGKAR MAKKPWRANE TFEEEEDSEE TEEDRENVAD  360
GWRFGGNNVE EDDDEETEDE G
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ubd_C9e-35892008117PROTEIN (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_00552.1_g00021.1
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
GenBankAC2411881e-132AC241188.1 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_018473531.10.0PREDICTED: uncharacterized zinc finger protein At4g06634-like
SwissprotQ2V3L31e-178YY1_ARATH; Zinc finger transcription factor YY1
TrEMBLA0A078H1W90.0A0A078H1W9_BRANA; BnaC03g16080D protein
STRINGBra029186.1-P0.0(Brassica rapa)
STRINGBo3g023850.10.0(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-160C2H2 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]