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O17323

- HDA4_CAEEL

UniProt

O17323 - HDA4_CAEEL

Protein

Histone deacetylase 4

Gene

hda-4

Organism
Caenorhabditis elegans
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 99 (01 Oct 2014)
      Sequence version 3 (03 Oct 2012)
      Previous versions | rss
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    Functioni

    Responsible for 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. Histone deacetylases act via the formation of large multiprotein complexes By similarity. May be involved in muscle development.By similarity

    Catalytic activityi

    Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei608 – 6081By similarity

    GO - Molecular functioni

    1. calmodulin binding Source: WormBase
    2. histone deacetylase activity Source: WormBase
    3. NAD-dependent histone deacetylase activity (H3-K14 specific) Source: UniProtKB-EC
    4. NAD-dependent histone deacetylase activity (H3-K18 specific) Source: UniProtKB-EC
    5. NAD-dependent histone deacetylase activity (H3-K9 specific) Source: UniProtKB-EC
    6. NAD-dependent histone deacetylase activity (H4-K16 specific) Source: UniProtKB-EC
    7. transcription corepressor activity Source: WormBase
    8. transcription factor binding Source: WormBase

    GO - Biological processi

    1. apoptotic process Source: WormBase
    2. cellular response to DNA damage stimulus Source: WormBase
    3. chromatin modification Source: WormBase
    4. growth Source: WormBase
    5. histone deacetylation Source: WormBase
    6. intracellular signal transduction Source: WormBase
    7. locomotion Source: WormBase
    8. negative regulation of transcription from RNA polymerase II promoter Source: WormBase
    9. post-embryonic body morphogenesis Source: WormBase
    10. regulation of neuron differentiation Source: WormBase
    11. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Chromatin regulator, Hydrolase, Repressor

    Keywords - Biological processi

    Transcription, Transcription regulation

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Histone deacetylase 4 (EC:3.5.1.98)
    Alternative name(s):
    CeHDA-7
    Histone deacetylase 7
    Gene namesi
    Name:hda-4
    Synonyms:hda-7
    ORF Names:C10E2.3
    OrganismiCaenorhabditis elegans
    Taxonomic identifieri6239 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
    ProteomesiUP000001940: Chromosome X

    Organism-specific databases

    WormBaseiC10E2.3a; CE42060; WBGene00001837; hda-4.
    C10E2.3b; CE37192; WBGene00001837; hda-4.

    Subcellular locationi

    Nucleus Curated

    GO - Cellular componenti

    1. cytoplasm Source: WormBase
    2. histone deacetylase complex Source: WormBase
    3. nucleus Source: WormBase

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 869869Histone deacetylase 4PRO_0000114742Add
    BLAST

    Proteomic databases

    PaxDbiO17323.

    Expressioni

    Tissue specificityi

    Expressed in body-wall muscle cells, hypodermal seam cells and neuronal cells including sensory amphid neuronal processes, the nerve ring, ventral nerve cords and motor neuronal commissures.1 Publication

    Interactioni

    Subunit structurei

    Isoform b interacts with mef-2.1 Publication

    Protein-protein interaction databases

    IntActiO17323. 1 interaction.
    MINTiMINT-4299370.
    STRINGi6239.C10E2.3.

    Structurei

    3D structure databases

    ProteinModelPortaliO17323.
    SMRiO17323. Positions 461-834.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni460 – 802343Histone deacetylaseAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi80 – 867Poly-Gln
    Compositional biasi857 – 86812Gln-richAdd
    BLAST

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG0123.
    GeneTreeiENSGT00530000062809.
    HOGENOMiHOG000112870.
    KOiK11406.
    OMAiNGFACIR.
    OrthoDBiEOG7RFTH5.

    Family and domain databases

    Gene3Di3.40.800.20. 1 hit.
    InterProiIPR000286. His_deacetylse.
    IPR023801. His_deacetylse_dom.
    [Graphical view]
    PANTHERiPTHR10625. PTHR10625. 1 hit.
    PfamiPF00850. Hist_deacetyl. 1 hit.
    [Graphical view]
    PRINTSiPR01270. HDASUPER.

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform a (identifier: O17323-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MEEASSSTGS AGGAGPSVPN LPSTSEAAIG QTNLEPESIA LLQSQLQEYR    50
    QKQMDLIGHF QRAQQELSVQ HMHNLYAALQ QQQQLQNLQT ERSAVNPLLI 100
    SQQHSTEDQN SGPAAPLSLA NSLTNLLSSS NGNLSVPQTP TKEHHPTAPT 150
    SNRKCDLPRS NSTTISQLTK DRLKNMIANR SKGESNSQSN LMSNSVTANG 200
    NGHDNGRKLK NSNSQVNVSS PHFEPYRLPT SLANAHNLQQ ASEFQLRKVN 250
    SEPNLKMRIR AKLLSKGSSP VQHVQQNNSQ FNFTHPQLKR SDSETSQNVP 300
    LDFMQSSSQT NLPHLMLPSP SLPNLAAAGA FHGLNLPVGQ DLNAFMAVAN 350
    LSPFLSLPSL LNKKLELGGL TDEGDRNGLI GSSSTSSLAS NVSMGSHQYQ 400
    SLLKQQIRDL VLRRKSLVRE DPEGEGLAEL YNGLLPQAKL QQLQALAAES 450
    GFLAKQEPTC TTGLGYDQAM VRHECCCGNN ASHVENGGRI QSIWSKLIEH 500
    GHVQKCEKVT AKKASLEQLQ LVHSQTYTTF FAVSPTACLK IDANSLPLKR 550
    FLQLPCGGIG VDSDTYFNDA STQTAARLAA GTLIELSSQV AEGRLKNGFA 600
    CIRPPGHHAE HEQAMGFCFF NNVAVAVKVL QTKYPAQCAK IAIIDWDVHH 650
    GNGTQLSFEN DPNVLYMSLH RHDKGNFFPG TGSVTEVGKN DAKGLTVNVP 700
    FSGDVMRDPE YLAAWRTVIE PVMASFCPDF IIVSAGFDAC HGHPNALGGY 750
    EVTPEMFGYM TKSLLNYASG KVVLALEGGY DLKSISEAAQ QCVQALIGES 800
    DDAGRLSSVA LESLPNPSAV ETLQKVIAIH KSYWPALHGQ EAAINTTEMQ 850
    WRNLKLQVQM QQQQQQQQT 869

    Note: No experimental confirmation available.

    Length:869
    Mass (Da):94,411
    Last modified:October 3, 2012 - v3
    Checksum:i0F186275170F82C3
    GO
    Isoform b (identifier: O17323-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-53: Missing.

    Show »
    Length:816
    Mass (Da):88,982
    Checksum:iDB4E641C91546161
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 5353Missing in isoform b. 1 PublicationVSP_044209Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    FO080490, FO080492 Genomic DNA. Translation: CCD64116.1.
    FO080490, FO080492 Genomic DNA. Translation: CCF23337.1.
    PIRiT32425.
    RefSeqiNP_001257278.1. NM_001270349.1. [O17323-1]
    NP_001257279.1. NM_001270350.1. [O17323-2]
    UniGeneiCel.36427.

    Genome annotation databases

    EnsemblMetazoaiC10E2.3a; C10E2.3a; WBGene00001837. [O17323-1]
    GeneIDi181723.
    KEGGicel:CELE_C10E2.3.
    UCSCiC10E2.3. c. elegans. [O17323-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    FO080490 , FO080492 Genomic DNA. Translation: CCD64116.1 .
    FO080490 , FO080492 Genomic DNA. Translation: CCF23337.1 .
    PIRi T32425.
    RefSeqi NP_001257278.1. NM_001270349.1. [O17323-1 ]
    NP_001257279.1. NM_001270350.1. [O17323-2 ]
    UniGenei Cel.36427.

    3D structure databases

    ProteinModelPortali O17323.
    SMRi O17323. Positions 461-834.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi O17323. 1 interaction.
    MINTi MINT-4299370.
    STRINGi 6239.C10E2.3.

    Proteomic databases

    PaxDbi O17323.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblMetazoai C10E2.3a ; C10E2.3a ; WBGene00001837 . [O17323-1 ]
    GeneIDi 181723.
    KEGGi cel:CELE_C10E2.3.
    UCSCi C10E2.3. c. elegans. [O17323-1 ]

    Organism-specific databases

    CTDi 181723.
    WormBasei C10E2.3a ; CE42060 ; WBGene00001837 ; hda-4.
    C10E2.3b ; CE37192 ; WBGene00001837 ; hda-4.

    Phylogenomic databases

    eggNOGi COG0123.
    GeneTreei ENSGT00530000062809.
    HOGENOMi HOG000112870.
    KOi K11406.
    OMAi NGFACIR.
    OrthoDBi EOG7RFTH5.

    Miscellaneous databases

    NextBioi 915090.

    Family and domain databases

    Gene3Di 3.40.800.20. 1 hit.
    InterProi IPR000286. His_deacetylse.
    IPR023801. His_deacetylse_dom.
    [Graphical view ]
    PANTHERi PTHR10625. PTHR10625. 1 hit.
    Pfami PF00850. Hist_deacetyl. 1 hit.
    [Graphical view ]
    PRINTSi PR01270. HDASUPER.
    ProtoNeti Search...

    Publicationsi

    1. "Characterization of CeHDA-7, a class II histone deacetylase interacting with MEF-2 in Caenorhabditis elegans."
      Choi K.Y., Ji Y.J., Jee C., Kim do H., Ahnn J.
      Biochem. Biophys. Res. Commun. 293:1295-1300(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM B), TISSUE SPECIFICITY, INTERACTION WITH MEF-2.
      Strain: Bristol N2.
    2. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
      The C. elegans sequencing consortium
      Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], ALTERNATIVE SPLICING.
      Strain: Bristol N2.

    Entry informationi

    Entry nameiHDA4_CAEEL
    AccessioniPrimary (citable) accession number: O17323
    Secondary accession number(s): H1ZUW2, Q400M0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 16, 2003
    Last sequence update: October 3, 2012
    Last modified: October 1, 2014
    This is version 99 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programCaenorhabditis annotation project

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Caenorhabditis elegans
      Caenorhabditis elegans: entries, gene names and cross-references to WormBase
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3