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 RrC629_p7
Organism
Raphanus raphanistrum
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: 384aa    MW: 43899 Da    PI: 6.9684
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC629_p7genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.22.9e-05124148123
                EEET..TTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                y+C    C+k F ++s LkrH   H
  RrC629_p7 124 YVCDypGCDKKFLDSSKLKRHWLIH 148
                89*******************9988 PP
2zf-C2H220.31.5e-06154178123
                EEET..TTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                ++C+   Cgk Fs   nL++H++tH
  RrC629_p7 154 FVCTyqGCGKAFSLDFNLRSHMKTH 178
                89**********************9 PP
3zf-C2H213.50.00022184209123
                EEET..TTTEEESSHHHHHHHHHH.T CS
    zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                + Cp   Cgk++ + + Lk+H    H
  RrC629_p7 184 HICPysGCGKRYAHEYKLKNHVAAyH 209
                68*******************87666 PP
4zf-C2H214.69.4e-05248273123
                EEET..TTTEEESSHHHHHHHHHH.T CS
    zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                y Cp   C+k + + + Lk H+++ H
  RrC629_p7 248 YACPyeGCDKAYIHEYKLKLHLKReH 273
                89*********************999 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.604.6E-1390121IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.01395119IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.32595124IPR007087Zinc finger, C2H2
PROSITE patternPS00028097119IPR007087Zinc finger, C2H2
SuperFamilySSF576673.03E-898148No hitNo description
Gene3DG3DSA:3.30.160.601.8E-14122144IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0025124148IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.404124153IPR007087Zinc finger, C2H2
PROSITE patternPS000280126148IPR007087Zinc finger, C2H2
SuperFamilySSF576672.28E-13135189No hitNo description
Gene3DG3DSA:3.30.160.601.5E-18145180IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003558.1E-4154178IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.884154183IPR007087Zinc finger, C2H2
PROSITE patternPS000280156178IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.3E-6184205IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0074184209IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280186209IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.7E-9245270IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.52E-5245271No hitNo description
SMARTSM003550.0051248273IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.806248278IPR007087Zinc finger, C2H2
PROSITE patternPS000280250273IPR007087Zinc 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: 384 aa     Download sequence    Send to blast
MEQHLQYPYQ NPFERQPILK SSKAPPAVRW IKDWVPQDIV ASGAKCYLRK WITVSLICFV  60
GGTEETLNRL KEKVKEPTTA DVSDPDPEPT SEILFLCSYD GCGKIFFDVN ALRKHSHVHG  120
ERQYVCDYPG CDKKFLDSSK LKRHWLIHTG ARDFVCTYQG CGKAFSLDFN LRSHMKTHSQ  180
ANYHICPYSG CGKRYAHEYK LKNHVAAYHE KNAAGETPTY TPPAEKVSRT PKTPAATVYA  240
SASLERPYAC PYEGCDKAYI HEYKLKLHLK REHLPEEKNN TPNLEEGSDQ DVYRKHASQK  300
HKQQSRAKAK MKTLPSAKAV KKGSTSSPAK ARMAKKPWQA NETFEEEEED SEETEEDREN  360
VADGWRFGGN NVEEDDDEET EDED
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ubd_C1e-34972088117PROTEIN (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}.
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-116AC241188.1 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-171YY1_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-171C2H2 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]