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 GSBRNA2T00032259001
Common NameGSBRNA2T00032259001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C2H2
Protein Properties Length: 357aa    MW: 39243 Da    PI: 4.5045
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00032259001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.88.5e-05329352123
                          EEETTTTEEESSHHHHHHHHHH.T CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirt.H 23 
                          + C+ C+++F++ + L++H +  H
  GSBRNA2T00032259001 329 FGCSSCNRTFTSEMGLQSHTKAkH 352
                          56*****************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5015711.427329356IPR007087Zinc finger, C2H2
PROSITE patternPS000280331352IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009414Biological Processresponse to water deprivation
GO:0009651Biological Processresponse to salt stress
GO:0009737Biological Processresponse to abscisic acid
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005730Cellular Componentnucleolus
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 357 aa     Download sequence    Send to blast
MVKDPGSKRF RRGHLTRRPK SSNRSRLLLE PFSPVASVAV SSLPIVSMEF WGVEVKSGSP  60
LRVDAEEEMI VHISLAALGE KKNGGNEPVR LYMKVGDQKL VIGTLSHDKC PQLCTEIVLE  120
RSFELSHSWK DGSVFFSGYR VDAHESDSYP YRCLTFDNLL MNMLLGLALL SDDDEPAEPA  180
VTKSGVKQVN FQLPNDDAKA EEDDEEDDSD DDEDDDDSED EEEEKKVTAE VEEDDDDEDS  240
SDDEEDDSSD EETPEKKVEE AKKRPAEATT SKTASNKKAK FVTPQKSESK KPHVHVATPH  300
PSKGGKSSGS NGESSKQQQQ QTPKSANAFG CSSCNRTFTS EMGLQSHTKA KHSGVA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.83280.0flower| microspore| microspore-derived embryo| seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves, roots, stems, young plantlets, flowers and siliques. Highest levels in ovules, embryos, shoot apical meristems and first leaves. Also expressed in somatic embryos. {ECO:0000269|PubMed:15144374, ECO:0000269|PubMed:16553900}.
Functional Description ? help Back to Top
Source Description
UniProtProbably mediates the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Involved in the modulation of abscisic acid and stress-responsive genes. {ECO:0000269|PubMed:12694598, ECO:0000269|PubMed:16553900}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00032259001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by abscisic acid. {ECO:0000269|PubMed:16553900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013606836.11e-156PREDICTED: histone deacetylase HDT3
RefseqXP_013730140.11e-156histone deacetylase HDT3-like
SwissprotQ9LZR53e-95HDT3_ARATH; Histone deacetylase HDT3
TrEMBLA0A078FBI20.0A0A078FBI2_BRANA; BnaCnng02600D protein
STRINGBo9g181760.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM20272667
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03740.15e-45histone deacetylase 2C
Publications ? help Back to Top
  1. Song Y,Wu K,Dhaubhadel S,An L,Tian L
    Arabidopsis DNA methyltransferase AtDNMT2 associates with histone deacetylase AtHD2s activity.
    Biochem. Biophys. Res. Commun., 2010. 396(2): p. 187-92
    [PMID:20331964]
  2. Khan A, et al.
    The Arabidopsis STRESS RESPONSE SUPPRESSOR DEAD-box RNA helicases are nucleolar- and chromocenter-localized proteins that undergo stress-mediated relocalization and are involved in epigenetic gene silencing.
    Plant J., 2014. 79(1): p. 28-43
    [PMID:24724701]
  3. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  4. Han Z, et al.
    AtHD2D Gene Plays a Role in Plant Growth, Development, and Response to Abiotic Stresses in Arabidopsis thaliana.
    Front Plant Sci, 2016. 7: p. 310
    [PMID:27066015]
  5. Buszewicz D, et al.
    HD2C histone deacetylase and a SWI/SNF chromatin remodelling complex interact and both are involved in mediating the heat stress response in Arabidopsis.
    Plant Cell Environ., 2016. 39(10): p. 2108-22
    [PMID:27083783]
  6. Chen X, et al.
    Canonical and Noncanonical Actions of Arabidopsis Histone Deacetylases in Ribosomal RNA Processing.
    Plant Cell, 2018. 30(1): p. 134-152
    [PMID:29343504]
  7. Huang KC,Lin WC,Cheng WH
    Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis.
    BMC Plant Biol., 2018. 18(1): p. 40
    [PMID:29490615]