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 Carubv10001157m
Common NameCARUB_v10001157mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C2H2
Protein Properties Length: 387aa    MW: 44664.6 Da    PI: 6.7062
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10001157mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H210.80.001581103323
                      ET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   3 Cp..dCgksFsrksnLkrHirtH 23 
                      C+   Cgk+F + s L++H   H
  Carubv10001157m  81 CSyeGCGKTFFDVSALRKHSHIH 103
                      77779**************7766 PP
2zf-C2H216.32.7e-05108132123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      y+C    Cgk F ++s LkrH   H
  Carubv10001157m 108 YVCDhaGCGKKFLDSSKLKRHYLIH 132
                      99*******************9988 PP
3zf-C2H220.41.3e-06138162123
                      EEET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                      ++C+   Cgk Fs   nL++H++tH
  Carubv10001157m 138 FVCTyeGCGKAFSLDFNLRSHMKTH 162
                      89**********************9 PP
4zf-C2H212.30.00053170193323
                      ET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   3 Cp..dCgksFsrksnLkrHirt.H 23 
                      Cp   Cgk++ + + Lk+H  + H
  Carubv10001157m 170 CPysGCGKRYAHEYKLKNHVANyH 193
                      9999***************99877 PP
5zf-C2H212.90.00033230255123
                      EEET..TTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                      y Cp   C k + + + Lk H+++ H
  Carubv10001157m 230 YACPyeGCEKAYIHEYKLKLHLKReH 255
                      89*********************999 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.602.7E-1474104IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.94979108IPR007087Zinc finger, C2H2
SMARTSM003550.006479103IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028081103IPR007087Zinc finger, C2H2
SuperFamilySSF576677.16E-982132No hitNo description
Gene3DG3DSA:3.30.160.601.8E-13105127IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.001108132IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015714.399108137IPR007087Zinc finger, C2H2
PROSITE patternPS000280110132IPR007087Zinc finger, C2H2
SuperFamilySSF576673.57E-15119173No hitNo description
Gene3DG3DSA:3.30.160.606.2E-21128164IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003557.2E-4138162IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.757138167IPR007087Zinc finger, C2H2
PROSITE patternPS000280140162IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.9E-6165189IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.039168193IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280170193IPR007087Zinc finger, C2H2
SuperFamilySSF576672.61E-5225253No hitNo description
Gene3DG3DSA:3.30.160.601.3E-8227252IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.012230255IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.328230260IPR007087Zinc finger, C2H2
PROSITE patternPS000280232255IPR007087Zinc 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: 387 aa     Download sequence    Send to blast
MDHQNYPYQN PFERRPILKS KAPAVKWIKE WVPQDIVATG GKCYLHKWVT EDTLKKLKEK  60
EKEPDVPEPE PEPTTEILFL CSYEGCGKTF FDVSALRKHS HIHGERQYVC DHAGCGKKFL  120
DSSKLKRHYL IHTGERAFVC TYEGCGKAFS LDFNLRSHMK THSQENYHLC PYSGCGKRYA  180
HEYKLKNHVA NYHEKNGAGE TPKYTPPAEK VSRTVKTPAA VYTASLDRPY ACPYEGCEKA  240
YIHEYKLKLH LKREHPGHLQ EENTENPTLM KHNGNDRNDM DNGSDQDVYR KHAINGKSQT  300
HKQQSRAKPN MRTPPTKAGK KGSTSSPAKV RIANIPWQAK ETFEEVQREE EEDSEETEED  360
RENVDDGWRF GENNEEDDDE ETEYED*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ubd_C5e-38811928117PROTEIN (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
PlantRegMapCarubv10001157m
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
GenBankAB0731620.0AB073162.1 Arabidopsis thaliana DNA, chromosome 4 centromere region, BAC clone:F8H12.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006287922.10.0zinc finger transcription factor YY1
SwissprotQ2V3L30.0YY1_ARATH; Zinc finger transcription factor YY1
TrEMBLR0H7H00.0R0H7H0_9BRAS; Uncharacterized protein
STRINGXP_006287922.10.0(Capsella rubella)
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
AT4G06634.10.0C2H2 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]