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 GSBRNA2T00136435001
Common NameGSBRNA2T00136435001
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: 197aa    MW: 21196.3 Da    PI: 4.0692
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00136435001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.83.9e-05169192123
                          EEETTTTEEESSHHHHHHHHHH.T CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirt.H 23 
                          + C+ C+++F++ + L++H +  H
  GSBRNA2T00136435001 169 FGCSSCNRTFTSEMGLQSHTKAkH 192
                          56*****************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5015710.928169196IPR007087Zinc finger, C2H2
PROSITE patternPS000280171192IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 197 aa     Download sequence    Send to blast
MLLGLAVFDI LDSLSDDDEP AVAKSGVKQV NFQLPNDDAK AEEDSEEDDS DDDEDDDDSE  60
DEEEEKKVTA EVEEDDDDED SSDDEEDDSA DEETPEKKVE EAKKRPAEAT TSKTASNKKA  120
KFVTPQKSES KKPHVHVATP HPSKGGKSSG SNGESSKQQQ QTPKSANAFG CSSCNRTFTS  180
EMGLQSHTKA KHSAAA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.83283e-64flower| 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
PlantRegMapGSBRNA2T00136435001
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_009122675.11e-122PREDICTED: histone deacetylase HDT3
RefseqXP_013668369.11e-122histone deacetylase HDT3-like
SwissprotQ9LZR52e-48HDT3_ARATH; Histone deacetylase HDT3
TrEMBLA0A3P6DD781e-132A0A3P6DD78_BRACM; Uncharacterized protein
TrEMBLM4CZ661e-132M4CZ66_BRARP; Uncharacterized protein
STRINGBra009513.1-P1e-133(Brassica rapa)
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
AT5G03740.16e-27histone 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]