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O17323 (HDA4_CAEEL) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 98. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Histone deacetylase 4

EC=3.5.1.98
Alternative name(s):
CeHDA-7
Histone deacetylase 7
Gene names
Name:hda-4
Synonyms:hda-7
ORF Names:C10E2.3
OrganismCaenorhabditis elegans [Reference proteome]
Taxonomic identifier6239 [NCBI]
Taxonomic lineageEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis

Protein attributes

Sequence length869 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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.

Catalytic activity

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

Subunit structure

Isoform b interacts with mef-2. Ref.1

Subcellular location

Nucleus Probable.

Tissue specificity

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. Ref.1

Sequence similarities

Belongs to the histone deacetylase family. HD type 2 subfamily.

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   Molecular functionChromatin regulator
Hydrolase
Repressor
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processapoptotic process

Inferred from sequence or structural similarity Ref.1. Source: WormBase

cellular response to DNA damage stimulus

Inferred from sequence or structural similarity Ref.1. Source: WormBase

chromatin modification

Inferred from sequence or structural similarity Ref.1. Source: WormBase

growth

Inferred from mutant phenotype PubMed 14551910. Source: WormBase

histone deacetylation

Inferred from sequence or structural similarity Ref.1. Source: WormBase

intracellular signal transduction

Inferred from sequence or structural similarity Ref.1. Source: WormBase

locomotion

Inferred from mutant phenotype PubMed 14551910. Source: WormBase

negative regulation of transcription from RNA polymerase II promoter

Inferred from mutant phenotype PubMed 17170704. Source: WormBase

post-embryonic body morphogenesis

Inferred from mutant phenotype PubMed 14551910. Source: WormBase

regulation of neuron differentiation

Inferred from mutant phenotype PubMed 17170704. Source: WormBase

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentcytoplasm

Inferred from sequence or structural similarity Ref.1. Source: WormBase

histone deacetylase complex

Inferred from sequence or structural similarity Ref.1. Source: WormBase

nucleus

Inferred from direct assay PubMed 17170704. Source: WormBase

   Molecular_functionNAD-dependent histone deacetylase activity (H3-K14 specific)

Inferred from electronic annotation. Source: UniProtKB-EC

NAD-dependent histone deacetylase activity (H3-K18 specific)

Inferred from electronic annotation. Source: UniProtKB-EC

NAD-dependent histone deacetylase activity (H3-K9 specific)

Inferred from electronic annotation. Source: UniProtKB-EC

NAD-dependent histone deacetylase activity (H4-K16 specific)

Inferred from electronic annotation. Source: UniProtKB-EC

calmodulin binding

Inferred from sequence or structural similarity Ref.1. Source: WormBase

histone deacetylase activity

Inferred from sequence or structural similarity Ref.1. Source: WormBase

transcription corepressor activity

Inferred from sequence or structural similarity Ref.1. Source: WormBase

transcription factor binding

Inferred from physical interaction Ref.1. Source: WormBase

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform a (identifier: O17323-1)

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.
Note: No experimental confirmation available.
Isoform b (identifier: O17323-2)

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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 869869Histone deacetylase 4
PRO_0000114742

Regions

Region460 – 802343Histone deacetylase
Compositional bias80 – 867Poly-Gln
Compositional bias857 – 86812Gln-rich

Sites

Active site6081 By similarity

Natural variations

Alternative sequence1 – 5353Missing in isoform b.
VSP_044209

Sequences

Sequence LengthMass (Da)Tools
Isoform a [UniParc].

Last modified October 3, 2012. Version 3.
Checksum: 0F186275170F82C3

FASTA86994,411
        10         20         30         40         50         60 
MEEASSSTGS AGGAGPSVPN LPSTSEAAIG QTNLEPESIA LLQSQLQEYR QKQMDLIGHF 

        70         80         90        100        110        120 
QRAQQELSVQ HMHNLYAALQ QQQQLQNLQT ERSAVNPLLI SQQHSTEDQN SGPAAPLSLA 

       130        140        150        160        170        180 
NSLTNLLSSS NGNLSVPQTP TKEHHPTAPT SNRKCDLPRS NSTTISQLTK DRLKNMIANR 

       190        200        210        220        230        240 
SKGESNSQSN LMSNSVTANG NGHDNGRKLK NSNSQVNVSS PHFEPYRLPT SLANAHNLQQ 

       250        260        270        280        290        300 
ASEFQLRKVN SEPNLKMRIR AKLLSKGSSP VQHVQQNNSQ FNFTHPQLKR SDSETSQNVP 

       310        320        330        340        350        360 
LDFMQSSSQT NLPHLMLPSP SLPNLAAAGA FHGLNLPVGQ DLNAFMAVAN LSPFLSLPSL 

       370        380        390        400        410        420 
LNKKLELGGL TDEGDRNGLI GSSSTSSLAS NVSMGSHQYQ SLLKQQIRDL VLRRKSLVRE 

       430        440        450        460        470        480 
DPEGEGLAEL YNGLLPQAKL QQLQALAAES GFLAKQEPTC TTGLGYDQAM VRHECCCGNN 

       490        500        510        520        530        540 
ASHVENGGRI QSIWSKLIEH GHVQKCEKVT AKKASLEQLQ LVHSQTYTTF FAVSPTACLK 

       550        560        570        580        590        600 
IDANSLPLKR FLQLPCGGIG VDSDTYFNDA STQTAARLAA GTLIELSSQV AEGRLKNGFA 

       610        620        630        640        650        660 
CIRPPGHHAE HEQAMGFCFF NNVAVAVKVL QTKYPAQCAK IAIIDWDVHH GNGTQLSFEN 

       670        680        690        700        710        720 
DPNVLYMSLH RHDKGNFFPG TGSVTEVGKN DAKGLTVNVP FSGDVMRDPE YLAAWRTVIE 

       730        740        750        760        770        780 
PVMASFCPDF IIVSAGFDAC HGHPNALGGY EVTPEMFGYM TKSLLNYASG KVVLALEGGY 

       790        800        810        820        830        840 
DLKSISEAAQ QCVQALIGES DDAGRLSSVA LESLPNPSAV ETLQKVIAIH KSYWPALHGQ 

       850        860 
EAAINTTEMQ WRNLKLQVQM QQQQQQQQT 

« Hide

Isoform b [UniParc].

Checksum: DB4E641C91546161
Show »

FASTA81688,982

References

« Hide 'large scale' references
[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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
FO080490, FO080492 Genomic DNA. Translation: CCD64116.1.
FO080490, FO080492 Genomic DNA. Translation: CCF23337.1.
PIRT32425.
RefSeqNP_001257278.1. NM_001270349.1. [O17323-1]
NP_001257279.1. NM_001270350.1. [O17323-2]
UniGeneCel.36427.

3D structure databases

ProteinModelPortalO17323.
SMRO17323. Positions 461-834.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActO17323. 1 interaction.
MINTMINT-4299370.
STRING6239.C10E2.3.

Proteomic databases

PaxDbO17323.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaC10E2.3a; C10E2.3a; WBGene00001837. [O17323-1]
GeneID181723.
KEGGcel:CELE_C10E2.3.
UCSCC10E2.3. c. elegans. [O17323-1]

Organism-specific databases

CTD181723.
WormBaseC10E2.3a; CE42060; WBGene00001837; hda-4.
C10E2.3b; CE37192; WBGene00001837; hda-4.

Phylogenomic databases

eggNOGCOG0123.
GeneTreeENSGT00530000062809.
HOGENOMHOG000112870.
KOK11406.
OMANGFACIR.
OrthoDBEOG7RFTH5.

Family and domain databases

Gene3D3.40.800.20. 1 hit.
InterProIPR000286. His_deacetylse.
IPR023801. His_deacetylse_dom.
[Graphical view]
PANTHERPTHR10625. PTHR10625. 1 hit.
PfamPF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PRINTSPR01270. HDASUPER.
ProtoNetSearch...

Other

NextBio915090.

Entry information

Entry nameHDA4_CAEEL
AccessionPrimary (citable) accession number: O17323
Secondary accession number(s): H1ZUW2, Q400M0
Entry history
Integrated into UniProtKB/Swiss-Prot: May 16, 2003
Last sequence update: October 3, 2012
Last modified: June 11, 2014
This is version 98 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Relevant documents

SIMILARITY comments

Index of protein domains and families

Caenorhabditis elegans

Caenorhabditis elegans: entries, gene names and cross-references to WormBase