O17695 (HDA1_CAEEL) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Histone deacetylase 1
EC=3.5.1.98

Gene names

Name:	hda-1
ORF Names:	C53A5.3

Organism

Caenorhabditis elegans [Reference proteome]

Taxonomic identifier

6239 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Protostomia › Ecdysozoa › Nematoda › Chromadorea › Rhabditida › Rhabditoidea › Rhabditidae › Peloderinae › Caenorhabditis

Protein attributes

Sequence length	461 AA.
Sequence status	Complete.
Protein existence	Evidence 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. Involved in the endoderm determination possibly by repressing end-1 expression. Also involved in vulval development, possibly by repressing lag-2 expression. Ref.2 Ref.3
Catalytic activity	Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone.
Subunit structure	Interacts with pop-1. Ref.2
Subcellular location	Nucleus. Cytoplasm. Note: Except in the germ line where it is also cytoplasmic.
Tissue specificity	Ubiquitously expressed throughout embryonic and postembryonic development. Ref.3
Developmental stage	Expressed both maternally and zygotically. Ref.3
Post-translational modification	Sumoylated Probable. Ref.4
Sequence similarities	Belongs to the histone deacetylase family. HD type 1 subfamily.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Cytoplasm Nucleus
Molecular function	Chromatin regulator Developmental protein Hydrolase Repressor
PTM	Ubl conjugation
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	embryo development ending in birth or egg hatching Inferred from mutant phenotype PubMed 9531533PubMed 9875852. Source: WormBase embryonic digestive tract morphogenesis Inferred from genetic interaction PubMed 15196946. Source: WormBase gonad development Inferred from mutant phenotype Ref.3. Source: WormBase histone H3 deacetylation Inferred from electronic annotation. Source: GOC histone H4 deacetylation Inferred from electronic annotation. Source: GOC negative regulation of Notch signaling pathway Inferred from mutant phenotype Ref.3. Source: WormBase negative regulation of Ras protein signal transduction Inferred from genetic interaction PubMed 10704416PubMed 9875852. Source: WormBase negative regulation of transcription from RNA polymerase II promoter Inferred from mutant phenotype Ref.2Ref.3. Source: WormBase negative regulation of vulval development Inferred from mutant phenotype Ref.3. Source: WormBase regulation of cell differentiation Inferred from genetic interaction PubMed 9531533. Source: WormBase tail tip morphogenesis Inferred from mutant phenotype PubMed 17506990. Source: WormBase transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	NuRD complex Inferred from physical interaction PubMed 12507426. Source: WormBase cytoplasm Inferred from direct assay Ref.3. Source: WormBase germ cell nucleus Inferred from direct assay Ref.3. Source: WormBase
Molecular_function	NAD-dependent histone deacetylase activity (H3-K14 specific) Inferred from electronic annotation. Source: EC NAD-dependent histone deacetylase activity (H3-K18 specific) Inferred from electronic annotation. Source: EC NAD-dependent histone deacetylase activity (H3-K9 specific) Inferred from electronic annotation. Source: EC NAD-dependent histone deacetylase activity (H4-K16 specific) Inferred from electronic annotation. Source: EC histone deacetylase activity Inferred from direct assay PubMed 12507426. Source: WormBase
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
pie-1	Q94131	3	EBI-318045,EBI-300501
pop-1	Q10666	3	EBI-318045,EBI-317870

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 461	461	Histone deacetylase 1		PRO_0000114719
Regions
	Region	13 – 325	313	Histone deacetylase
Sites
	Active site	145	1	By similarity
Experimental info
	Mutagenesis	145	1	H → F: Loss of function.
	Mutagenesis	186	1	G → E in gon-10; specific defects in gonadogenesis and vulval development. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	O17695 [UniParc]. Last modified January 1, 1998. Version 1. Checksum: 9A104E88C5A1C07A	FASTA	461	52,138
	10 20 30 40 50 60 MNSNGPLMEH GKRRVAYYYD SNIGNYYYGQ GHVMKPHRIR MTHHLVLNYG LYRNLEIFRP 70 80 90 100 110 120 FPASFEDMTR FHSDEYMTFL KSANPDNLKS FNKQMLKFNV GEDCPLFDGL YEFCQLSSGG 130 140 150 160 170 180 SLAAATKLNK QKVDIAINWM GGLHHAKKSE ASGFCYTNDI VLGILELLKY HKRVLYVDID 190 200 210 220 230 240 VHHGDGVEEA FYTTDRVMTV SFHKYGDFFP GTGDLKDIGA GKGKLYSVNV PLRDGITDVS 250 260 270 280 290 300 YQSIFKPIMT KVMERFDPCA VVLQCGADSL NGDRLGPFNL TLKGHGECAR FFRSYNVPLM 310 320 330 340 350 360 MVGGGGYTPR NVARCWTYET SIAVDKEVPN ELPYNDYFEY FGPNYRLHIE SSNAANENSS 370 380 390 400 410 420 DMLAKLQTDV IANLEQLTFV PSVQMRPIPE DALSALNDDS LIADQANPDK RLPPQITDGM 430 440 450 460 IQDDGDFYDG EREGDDRRNE SDAKRAAQFE SEGGEKRQKT E

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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.
[2]	"A POP-1 repressor complex restricts inappropriate cell type-specific gene transcription during Caenorhabditis elegans embryogenesis." Calvo D., Victor M., Gay F., Sui G., Luke M.P.-S., Dufourcq P., Wen G., Maduro M., Rothman J., Shi Y. EMBO J. 20:7197-7208(2001) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH POP-1.
[3]	"Functional requirement for histone deacetylase 1 in Caenorhabditis elegans gonadogenesis." Dufourcq P., Victor M., Gay F., Calvo D., Hodgkin J., Shi Y. Mol. Cell. Biol. 22:3024-3034(2002) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, MUTAGENESIS OF GLY-186.
[4]	"Chromatin regulation and sumoylation in the inhibition of Ras-induced vulval development in Caenorhabditis elegans." Poulin G., Dong Y., Fraser A.G., Hopper N.A., Ahringer J. EMBO J. 24:2613-2623(2005) [PubMed] [Europe PMC] [Abstract] Cited for: SUMOYLATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z81486 Genomic DNA. Translation: CAB03984.1.
PIR	T20163.
RefSeq	NP_506599.1. NM_074198.7.
3D structure databases
ProteinModelPortal	O17695.
SMR	O17695. Positions 12-377.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-26427N.
IntAct	O17695. 11 interactions.
MINT	MINT-226391.
STRING	6239.C53A5.3.2.
Proteomic databases
PaxDb	O17695.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblMetazoa	C53A5.3.1; C53A5.3.1; C53A5.3. C53A5.3.2; C53A5.3.2; C53A5.3.
GeneID	179959.
KEGG	cel:CELE_C53A5.3.
UCSC	C53A5.3.1. c. elegans.
Organism-specific databases
CTD	179959.
WormBase	C53A5.3; CE08952; WBGene00001834; hda-1.
Phylogenomic databases
eggNOG	COG0123.
GeneTree	ENSGT00530000062889.
HOGENOM	HOG000225180.
InParanoid	O17695.
KO	K06067.
OMA	ENDTKVQ.
Family and domain databases
Gene3D	3.40.800.20. 1 hit.
InterPro	IPR000286. His_deacetylse. IPR003084. His_deacetylse_1. IPR023801. His_deacetylse_dom. [Graphical view]
PANTHER	PTHR10625. PTHR10625. 1 hit.
Pfam	PF00850. Hist_deacetyl. 1 hit. [Graphical view]
PIRSF	PIRSF037913. His_deacetylse_1. 1 hit.
PRINTS	PR01270. HDASUPER. PR01271. HISDACETLASE.
ProtoNet	Search...
Other
NextBio	907546.

Entry information

Entry name

HDA1_CAEEL

Accession

Primary (citable) accession number: O17695

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 15, 1998
Last sequence update:	January 1, 1998
Last modified:	May 1, 2013
This is version 102 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Caenorhabditis annotation project