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 XP_013583952.1
Organism
Brassica oleracea
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: 236aa    MW: 24923.3 Da    PI: 5.4336
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013583952.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.41.2e-05209231223
                     EETTTTEEESSHHHHHHHHHH.T CS
         zf-C2H2   2 kCpdCgksFsrksnLkrHirt.H 23 
                     +C+ C+k+F+++  L++H +  H
  XP_013583952.1 209 SCGSCKKTFNSSNALESHTKAkH 231
                     6*****************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF057646.8E-871223No hitNo description
PROSITE profilePS5015710.014208236IPR007087Zinc finger, C2H2
PROSITE patternPS000280210231IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009294Biological ProcessDNA mediated transformation
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010162Biological Processseed dormancy process
GO:0005730Cellular Componentnucleolus
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 236 aa     Download sequence    Send to blast
MEFWGVEVQA GKPLKVTPGY DSIVHISHAS LGDCKGKKGE AVTLNVKEFE LSHNWGKGSV  60
HFVGFKCPNN KDDEGGEDFS DSEEEEEVEV PVPVAANGNA AKAVANPKPV TAPDDSDSEG  120
MDEDCSDDED DSEEEEETPK AETRRKRAHE AAPAPKTPVS AKKAKAAEAT PKKTEEKKKG  180
GPATPHPAKK GGNTPATATQ SPKSASQVSC GSCKKTFNSS NALESHTKAK HSATAK
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:10792817, ECO:0000269|PubMed:15144374}.
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. Required for histone H3 'Lys-9' deacetylation. Involved in rRNA gene silencing in nucleolar dominance. Seems to be implicated in the regulation of genes involved in seeds development. {ECO:0000269|PubMed:10792817, ECO:0000269|PubMed:12694598, ECO:0000269|PubMed:14992728, ECO:0000269|PubMed:15144374}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013583952.1
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_013583952.11e-169PREDICTED: histone deacetylase HDT1
SwissprotQ9FVE62e-50HDT1_ARATH; Histone deacetylase HDT1
TrEMBLA0A078G5W11e-108A0A078G5W1_BRANA; BnaC01g23930D protein
TrEMBLA0A0D3A8I41e-108A0A0D3A8I4_BRAOL; Uncharacterized protein
TrEMBLA0A3P6FSX51e-108A0A3P6FSX5_BRAOL; Uncharacterized protein
STRINGBo1g063760.11e-109(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
AT3G44750.28e-25histone deacetylase 3
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. Lee K,Park OS,Jung SJ,Seo PJ
    Histone deacetylation-mediated cellular dedifferentiation in Arabidopsis.
    J. Plant Physiol., 2016. 191: p. 95-100
    [PMID:26724747]
  3. 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]
  4. Li H, et al.
    Plant-Specific Histone Deacetylases HDT1/2 Regulate GIBBERELLIN 2-OXIDASE2 Expression to Control Arabidopsis Root Meristem Cell Number.
    Plant Cell, 2017. 29(9): p. 2183-2196
    [PMID:28855334]