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Q20296

- HDA6_CAEEL

UniProt

Q20296 - HDA6_CAEEL

Protein

Histone deacetylase 6

Gene

hda-6

Organism
Caenorhabditis elegans
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 102 (01 Oct 2014)
      Sequence version 2 (16 May 2003)
      Previous versions | rss
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    Functioni

    Probable histone deacetylase. Histone deacetylases are 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.By similarity

    Catalytic activityi

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

    Cofactori

    Binds 3 zinc ions per subunit.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei146 – 14611By similarity
    Active sitei561 – 56112By similarity
    Metal bindingi855 – 8551Zinc 1By similarity
    Metal bindingi857 – 8571Zinc 1By similarity
    Metal bindingi875 – 8751Zinc 3By similarity
    Metal bindingi878 – 8781Zinc 3By similarity
    Metal bindingi887 – 8871Zinc 2By similarity
    Metal bindingi890 – 8901Zinc 2By similarity
    Metal bindingi895 – 8951Zinc 3By similarity
    Metal bindingi902 – 9021Zinc 3By similarity
    Metal bindingi906 – 9061Zinc 2By similarity
    Metal bindingi912 – 9121Zinc 2By similarity
    Metal bindingi925 – 9251Zinc 1By similarity
    Metal bindingi928 – 9281Zinc 1By similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri873 – 93462UBP-typePROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. NAD-dependent histone deacetylase activity (H3-K14 specific) Source: UniProtKB-EC
    2. NAD-dependent histone deacetylase activity (H3-K18 specific) Source: UniProtKB-EC
    3. NAD-dependent histone deacetylase activity (H3-K9 specific) Source: UniProtKB-EC
    4. NAD-dependent histone deacetylase activity (H4-K16 specific) Source: UniProtKB-EC
    5. protein deacetylase activity Source: WormBase
    6. zinc ion binding Source: InterPro

    GO - Biological processi

    1. protein deacetylation Source: GOC
    2. regulation of transcription, DNA-templated Source: UniProtKB-KW
    3. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Chromatin regulator, Hydrolase, Repressor

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Histone deacetylase 6 (EC:3.5.1.98)
    Gene namesi
    Name:hda-6
    ORF Names:F41H10.6
    OrganismiCaenorhabditis elegans
    Taxonomic identifieri6239 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
    ProteomesiUP000001940: Chromosome IV

    Organism-specific databases

    WormBaseiF41H10.6a; CE20772; WBGene00018319; hda-6.
    F41H10.6b; CE25887; WBGene00018319; hda-6.

    Subcellular locationi

    Nucleus Curated

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 955955Histone deacetylase 6PRO_0000114743Add
    BLAST

    Proteomic databases

    PaxDbiQ20296.
    PRIDEiQ20296.

    Structurei

    3D structure databases

    ProteinModelPortaliQ20296.
    SMRiQ20296. Positions 34-393, 442-816, 851-954.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni15 – 337323Histone deacetylase 1Add
    BLAST
    Regioni425 – 749325Histone deacetylase 2Add
    BLAST
    Regioni896 – 8983Ubiquitin bindingBy similarity
    Regioni924 – 9318Ubiquitin bindingBy similarity

    Sequence similaritiesi

    Contains 1 UBP-type zinc finger.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri873 – 93462UBP-typePROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiCOG0123.
    GeneTreeiENSGT00530000062809.
    HOGENOMiHOG000004769.
    KOiK11407.

    Family and domain databases

    Gene3Di3.30.40.10. 1 hit.
    3.40.800.20. 2 hits.
    InterProiIPR000286. His_deacetylse.
    IPR023801. His_deacetylse_dom.
    IPR013083. Znf_RING/FYVE/PHD.
    IPR001607. Znf_UBP.
    [Graphical view]
    PANTHERiPTHR10625. PTHR10625. 1 hit.
    PfamiPF00850. Hist_deacetyl. 2 hits.
    PF02148. zf-UBP. 1 hit.
    [Graphical view]
    PRINTSiPR01270. HDASUPER.
    PROSITEiPS50271. ZF_UBP. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform b (identifier: Q20296-1) [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

    MLFEDRQKNR STGPTLIGFN QTQNEHENTV CPTHPESSDR ILKIKEALTK    50
    TKILEKCTVL TNFLEIDDAD LEVTHDKSMV KDLMESEKKT QEDINSQCEK 100
    YDSVFMTENS MKVAKDGVAC VRDLTNRIMA NEASNGFAVV RPPGHHADSV 150
    SPCGFCLFNN VAQAAEEAFF SGAERILIVD LDVHHGHGTQ RIFYDDKRVL 200
    YFSIHRHEHG LFWPHLPESD FDHIGSGKGL GYNANLALNE TGCTDSDYLS 250
    IIFHVLLPLA TQFDPHFVII SAGFDALLGD PLGGMCLTPD GYSHILYHLK 300
    SLAQGRMLVV LEGGYNHQIS AVAVQRCVRV LLGYAPFSIE LNEAPKESTV 350
    DSCVSLVSVL RHHWNCFDYF PSRTSLRLAQ WPIVNTKVIY NYDPTTRRAD 400
    TGEIIQDELA STEFTASDVI PTENMETLIY FNEGDDAHFD LEEDNHPEKP 450
    ARTRRILKTL RESGVLEKCV DRNCERIATN EEIRLVHTKK MLEHLRTTET 500
    MKDEELMEEA EKEFNSIYLT RDTLKVARKA VGAVLQSVDE IFEKDAGQRN 550
    ALVIVRPPGH HASASKSSGF CIFNNVAVAA KYAQRRHKAK RVLILDWDVH 600
    HGNGTQEIFY EDSNVMYMSI HRHDKGNFYP IGEPKDYSDV GEGAGEGMSV 650
    NVPFSGVQMG DNEYQMAFQR VIMPIAYQFN PDLVLISAGF DAAVDDPLGE 700
    YKVTPETFAL MTYQLSSLAG GRIITVLEGG YNLTSISNSA QAVCEVLQNR 750
    SMLRRLREEK EQFATKPQKI ESSCIKTIRE VCAVQQKYWS ILKGFQVTPS 800
    NYGLDIDDEA YDDDSIDMAD QSSSSGSSSS STRPSHNLEI MDSGPAHAVV 850
    PLATCPHLKE VKPLPPAKIN ARTACSECQI GAEVWTCLTC YKYNCGRFVN 900
    EHAMMHHLSS SHPMALSMAD LSVWCYPCDS YVHNPALIGA KSAAHESKFG 950
    ETMPS 955

    Note: Derived from EST data. No experimental confirmation available.

    Length:955
    Mass (Da):106,749
    Last modified:May 16, 2003 - v2
    Checksum:i315C314B5ACC9E0E
    GO
    Isoform a (identifier: Q20296-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         797-863: VTPSNYGLDI...TCPHLKEVKP → IIIGSVLNSK...VMEKLENMKL
         864-955: Missing.

    Note: Derived from EST data. No experimental confirmation available.

    Show »
    Length:863
    Mass (Da):97,087
    Checksum:iF36CAF4F3DC93AB7
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei797 – 86367VTPSN…KEVKP → IIIGSVLNSKLINKNGKSSA ATLKVKGKAATDPVKQADDS RRYNTRRRRSANDEVEDVME KLENMKL in isoform a. CuratedVSP_007436Add
    BLAST
    Alternative sequencei864 – 95592Missing in isoform a. CuratedVSP_007437Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    FO081367 Genomic DNA. Translation: CCD71098.1.
    FO081367 Genomic DNA. Translation: CCD71099.1.
    RefSeqiNP_500787.1. NM_068386.3. [Q20296-1]
    NP_500788.1. NM_068387.3. [Q20296-2]
    UniGeneiCel.12964.

    Genome annotation databases

    EnsemblMetazoaiF41H10.6b; F41H10.6b; WBGene00018319. [Q20296-1]
    GeneIDi177316.
    KEGGicel:CELE_F41H10.6.
    UCSCiY51H1A.5.1. c. elegans. [Q20296-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    FO081367 Genomic DNA. Translation: CCD71098.1 .
    FO081367 Genomic DNA. Translation: CCD71099.1 .
    RefSeqi NP_500787.1. NM_068386.3. [Q20296-1 ]
    NP_500788.1. NM_068387.3. [Q20296-2 ]
    UniGenei Cel.12964.

    3D structure databases

    ProteinModelPortali Q20296.
    SMRi Q20296. Positions 34-393, 442-816, 851-954.
    ModBasei Search...
    MobiDBi Search...

    Proteomic databases

    PaxDbi Q20296.
    PRIDEi Q20296.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblMetazoai F41H10.6b ; F41H10.6b ; WBGene00018319 . [Q20296-1 ]
    GeneIDi 177316.
    KEGGi cel:CELE_F41H10.6.
    UCSCi Y51H1A.5.1. c. elegans. [Q20296-1 ]

    Organism-specific databases

    CTDi 177316.
    WormBasei F41H10.6a ; CE20772 ; WBGene00018319 ; hda-6.
    F41H10.6b ; CE25887 ; WBGene00018319 ; hda-6.

    Phylogenomic databases

    eggNOGi COG0123.
    GeneTreei ENSGT00530000062809.
    HOGENOMi HOG000004769.
    KOi K11407.

    Miscellaneous databases

    NextBioi 896234.
    PROi Q20296.

    Family and domain databases

    Gene3Di 3.30.40.10. 1 hit.
    3.40.800.20. 2 hits.
    InterProi IPR000286. His_deacetylse.
    IPR023801. His_deacetylse_dom.
    IPR013083. Znf_RING/FYVE/PHD.
    IPR001607. Znf_UBP.
    [Graphical view ]
    PANTHERi PTHR10625. PTHR10625. 1 hit.
    Pfami PF00850. Hist_deacetyl. 2 hits.
    PF02148. zf-UBP. 1 hit.
    [Graphical view ]
    PRINTSi PR01270. HDASUPER.
    PROSITEi PS50271. ZF_UBP. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "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].
      Strain: Bristol N2.

    Entry informationi

    Entry nameiHDA6_CAEEL
    AccessioniPrimary (citable) accession number: Q20296
    Secondary accession number(s): Q9BI90, Q9BI91
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 15, 1998
    Last sequence update: May 16, 2003
    Last modified: October 1, 2014
    This is version 102 of the entry and version 2 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