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 Carubv10001577m
Common NameCARUB_v10001577mg
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: 300aa    MW: 32488.9 Da    PI: 4.3998
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10001577mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.88e-05274295323
                      ETTTTEEESSHHHHHHHHHH.T CS
          zf-C2H2   3 CpdCgksFsrksnLkrHirt.H 23 
                      C+ C++sF++ + L++H +  H
  Carubv10001577m 274 CKSCTRSFTSEMALQSHTKAkH 295
                      *****************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5015710.076272299IPR007087Zinc finger, C2H2
PROSITE patternPS000280274295IPR007087Zinc 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: 300 aa     Download sequence    Send to blast
MEFWGVEVKQ GAPLHVDPGV DMLVHISQAA LGENKNNVNE PIKLYLRVKD KKHIIGVLSH  60
DKIPQLATEI VLERNFELSH SWKNGSVFFS GYKVDASDPE NENMTDDGLA VASNEAEPAV  120
AKSGVKQVNF QLPNEDVQAK QDDDDDDSED DSSDDDDDDS SEESGDEEEK TVTAEGDSDE  180
DDSSDDDEED SSEEDTPIKP EEPKKRSAEA NSSKNTASNK KAKFVTPQKS ESKKPHVHVA  240
TPHPSKQAGK NSGGSSNGES LKQQQTPKSP SHGCKSCTRS FTSEMALQSH TKAKHSAAA*
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
PlantRegMapCarubv10001577m
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_006288331.10.0histone deacetylase HDT3 isoform X1
SwissprotQ9LZR51e-128HDT3_ARATH; Histone deacetylase HDT3
TrEMBLR0GWD30.0R0GWD3_9BRAS; Uncharacterized protein
STRINGXP_006288331.10.0(Capsella rubella)
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
AT5G03740.11e-69histone 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. 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. 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]
  5. 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]
  6. 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]