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P53973 (HDA1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 116. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Histone deacetylase HDA1

EC=3.5.1.98
Gene names
Name:HDA1
Ordered Locus Names:YNL021W
ORF Names:N2819
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length706 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.

Catalytic activity

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

Subcellular location

Nucleus.

Miscellaneous

Present with 3050 molecules/cell in log phase SD medium.

Sequence similarities

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

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   Molecular functionChromatin regulator
Hydrolase
Repressor
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processgene silencing by RNA

Inferred from mutant phenotype PubMed 18022365. Source: SGD

gene silencing involved in chronological cell aging

Inferred from mutant phenotype PubMed 18022365. Source: SGD

histone deacetylation

Inferred from direct assay PubMed 11287668. Source: SGD

negative regulation of chromatin silencing involved in replicative cell aging

Inferred from mutant phenotype PubMed 10512855. Source: SGD

negative regulation of transcription by transcription factor localization

Inferred from genetic interaction PubMed 17974563. Source: SGD

negative regulation of transcription from RNA polymerase II promoter

Inferred from mutant phenotype PubMed 11172717PubMed 17121596. Source: SGD

positive regulation of transcription from RNA polymerase II promoter

Inferred from mutant phenotype PubMed 17706600. Source: SGD

regulation of chromatin silencing at telomere

Inferred from mutant phenotype Ref.3. Source: SGD

regulation of transcription by chromatin organization

Inferred from mutant phenotype PubMed 11867538. Source: SGD

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentHDA1 complex

Inferred from direct assay PubMed 11287668PubMed 8663039Ref.3. Source: SGD

   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

chromatin binding

Inferred from direct assay PubMed 16415367. Source: SGD

identical protein binding

Inferred from physical interaction PubMed 11287668PubMed 11805826PubMed 18719252PubMed 21179020. Source: IntAct

protein binding

Inferred from physical interaction PubMed 11287668PubMed 11805826PubMed 16429126PubMed 21179020. Source: IntAct

Complete GO annotation...

Binary interactions

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 706706Histone deacetylase HDA1
PRO_0000114738

Regions

Region67 – 396330Histone deacetylase

Sites

Active site2061 By similarity

Sequences

Sequence LengthMass (Da)Tools
P53973 [UniParc].

Last modified October 1, 1996. Version 1.
Checksum: 4E7069E66D03264D

FASTA70680,070
        10         20         30         40         50         60 
MDSVMVKKEV LENPDHDLKR KLEENKEEEN SLSTTSKSKR QVIVPVCMPK IHYSPLKTGL 

        70         80         90        100        110        120 
CYDVRMRYHA KIFTSYFEYI DPHPEDPRRI YRIYKILAEN GLINDPTLSG VDDLGDLMLK 

       130        140        150        160        170        180 
IPVRAATSEE ILEVHTKEHL EFIESTEKMS REELLKETEK GDSVYFNNDS YASARLPCGG 

       190        200        210        220        230        240 
AIEACKAVVE GRVKNSLAVV RPPGHHAEPQ AAGGFCLFSN VAVAAKNILK NYPESVRRIM 

       250        260        270        280        290        300 
ILDWDIHHGN GTQKSFYQDD QVLYVSLHRF EMGKYYPGTI QGQYDQTGEG KGEGFNCNIT 

       310        320        330        340        350        360 
WPVGGVGDAE YMWAFEQVVM PMGREFKPDL VIISSGFDAA DGDTIGQCHV TPSCYGHMTH 

       370        380        390        400        410        420 
MLKSLARGNL CVVLEGGYNL DAIARSALSV AKVLIGEPPD ELPDPLSDPK PEVIEMIDKV 

       430        440        450        460        470        480 
IRLQSKYWNC FRRRHANSGC NFNEPINDSI ISKNFPLQKA IRQQQQHYLS DEFNFVTLPL 

       490        500        510        520        530        540 
VSMDLPDNTV LCTPNISESN TIIIVVHDTS DIWAKRNVIS GTIDLSSSVI IDNSLDFIKW 

       550        560        570        580        590        600 
GLDRKYGIID VNIPLTLFEP DNYSGMITSQ EVLIYLWDNY IKYFPSVAKI AFIGIGDSYS 

       610        620        630        640        650        660 
GIVHLLGHRD TRAVTKTVIN FLGDKQLKPL VPLVDETLSE WYFKNSLIFS NNSHQCWKEN 

       670        680        690        700 
ESRKPRKKFG RVLRCDTDGL NNIIEERFEE ATDFILDSFE EWSDEE 

« Hide

References

« Hide 'large scale' references
[1]"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications."
Philippsen P., Kleine K., Poehlmann R., Duesterhoeft A., Hamberg K., Hegemann J.H., Obermaier B., Urrestarazu L.A., Aert R., Albermann K., Altmann R., Andre B., Baladron V., Ballesta J.P.G., Becam A.-M., Beinhauer J.D., Boskovic J., Buitrago M.J. expand/collapse author list , Bussereau F., Coster F., Crouzet M., D'Angelo M., Dal Pero F., De Antoni A., del Rey F., Doignon F., Domdey H., Dubois E., Fiedler T.A., Fleig U., Floeth M., Fritz C., Gaillardin C., Garcia-Cantalejo J.M., Glansdorff N., Goffeau A., Gueldener U., Herbert C.J., Heumann K., Heuss-Neitzel D., Hilbert H., Hinni K., Iraqui Houssaini I., Jacquet M., Jimenez A., Jonniaux J.-L., Karpfinger-Hartl L., Lanfranchi G., Lepingle A., Levesque H., Lyck R., Maftahi M., Mallet L., Maurer C.T.C., Messenguy F., Mewes H.-W., Moestl D., Nasr F., Nicaud J.-M., Niedenthal R.K., Pandolfo D., Pierard A., Piravandi E., Planta R.J., Pohl T.M., Purnelle B., Rebischung C., Remacha M.A., Revuelta J.L., Rinke M., Saiz J.E., Sartorello F., Scherens B., Sen-Gupta M., Soler-Mira A., Urbanus J.H.M., Valle G., Van Dyck L., Verhasselt P., Vierendeels F., Vissers S., Voet M., Volckaert G., Wach A., Wambutt R., Wedler H., Zollner A., Hani J.
Nature 387:93-98(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[2]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
Cited for: GENOME REANNOTATION.
Strain: ATCC 204508 / S288c.
[3]"HDA1 and RPD3 are members of distinct yeast histone deacetylase complexes that regulate silencing and transcription."
Rundlett S.E., Carmen A.A., Kobayashi R., Bavykin S., Turner B.M., Grunstein M.
Proc. Natl. Acad. Sci. U.S.A. 93:14503-14508(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: CHARACTERIZATION.
[4]"Global analysis of protein expression in yeast."
Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S.
Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Z71297 Genomic DNA. Translation: CAA95883.1.
BK006947 Genomic DNA. Translation: DAA10524.1.
PIRS62933.
RefSeqNP_014377.1. NM_001182860.1.

3D structure databases

ProteinModelPortalP53973.
SMRP53973. Positions 55-439.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid35805. 436 interactions.
DIPDIP-1360N.
IntActP53973. 17 interactions.
MINTMINT-387448.
STRING4932.YNL021W.

Proteomic databases

MaxQBP53973.
PaxDbP53973.
PeptideAtlasP53973.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYNL021W; YNL021W; YNL021W.
GeneID855710.
KEGGsce:YNL021W.

Organism-specific databases

CYGDYNL021w.
SGDS000004966. HDA1.

Phylogenomic databases

eggNOGCOG0123.
GeneTreeENSGT00530000062809.
HOGENOMHOG000161343.
KOK11407.
OMACYDDRMK.
OrthoDBEOG75B8GB.

Enzyme and pathway databases

BioCycYEAST:G3O-33059-MONOMER.

Gene expression databases

GenevestigatorP53973.

Family and domain databases

Gene3D3.40.800.20. 1 hit.
InterProIPR019154. Arb2_domain.
IPR000286. His_deacetylse.
IPR023801. His_deacetylse_dom.
IPR017321. Hist_deAcase_II_yeast.
[Graphical view]
PANTHERPTHR10625. PTHR10625. 1 hit.
PfamPF09757. Arb2. 1 hit.
PF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PIRSFPIRSF037919. HDAC_II_yeast. 1 hit.
PRINTSPR01270. HDASUPER.
ProtoNetSearch...

Other

NextBio980058.

Entry information

Entry nameHDA1_YEAST
AccessionPrimary (citable) accession number: P53973
Secondary accession number(s): D6W1F8
Entry history
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: June 11, 2014
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome XIV

Yeast (Saccharomyces cerevisiae) chromosome XIV: entries and gene names

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

SIMILARITY comments

Index of protein domains and families