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O17323

- HDA4_CAEEL

UniProt

O17323 - HDA4_CAEEL

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Protein

Histone deacetylase 4

Gene

hda-4

Organism
Caenorhabditis elegans
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

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
Complete GO annotation...

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
Complete GO annotation...

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 461-865.
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.
InParanoidiO17323.
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

        10         20         30         40         50
MEEASSSTGS AGGAGPSVPN LPSTSEAAIG QTNLEPESIA LLQSQLQEYR
60 70 80 90 100
QKQMDLIGHF QRAQQELSVQ HMHNLYAALQ QQQQLQNLQT ERSAVNPLLI
110 120 130 140 150
SQQHSTEDQN SGPAAPLSLA NSLTNLLSSS NGNLSVPQTP TKEHHPTAPT
160 170 180 190 200
SNRKCDLPRS NSTTISQLTK DRLKNMIANR SKGESNSQSN LMSNSVTANG
210 220 230 240 250
NGHDNGRKLK NSNSQVNVSS PHFEPYRLPT SLANAHNLQQ ASEFQLRKVN
260 270 280 290 300
SEPNLKMRIR AKLLSKGSSP VQHVQQNNSQ FNFTHPQLKR SDSETSQNVP
310 320 330 340 350
LDFMQSSSQT NLPHLMLPSP SLPNLAAAGA FHGLNLPVGQ DLNAFMAVAN
360 370 380 390 400
LSPFLSLPSL LNKKLELGGL TDEGDRNGLI GSSSTSSLAS NVSMGSHQYQ
410 420 430 440 450
SLLKQQIRDL VLRRKSLVRE DPEGEGLAEL YNGLLPQAKL QQLQALAAES
460 470 480 490 500
GFLAKQEPTC TTGLGYDQAM VRHECCCGNN ASHVENGGRI QSIWSKLIEH
510 520 530 540 550
GHVQKCEKVT AKKASLEQLQ LVHSQTYTTF FAVSPTACLK IDANSLPLKR
560 570 580 590 600
FLQLPCGGIG VDSDTYFNDA STQTAARLAA GTLIELSSQV AEGRLKNGFA
610 620 630 640 650
CIRPPGHHAE HEQAMGFCFF NNVAVAVKVL QTKYPAQCAK IAIIDWDVHH
660 670 680 690 700
GNGTQLSFEN DPNVLYMSLH RHDKGNFFPG TGSVTEVGKN DAKGLTVNVP
710 720 730 740 750
FSGDVMRDPE YLAAWRTVIE PVMASFCPDF IIVSAGFDAC HGHPNALGGY
760 770 780 790 800
EVTPEMFGYM TKSLLNYASG KVVLALEGGY DLKSISEAAQ QCVQALIGES
810 820 830 840 850
DDAGRLSSVA LESLPNPSAV ETLQKVIAIH KSYWPALHGQ EAAINTTEMQ
860
WRNLKLQVQM QQQQQQQQT

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:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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 461-865.
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.
InParanoidi O17323.
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

« Hide 'large scale' publications
  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: November 26, 2014
This is version 101 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