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Protein

Histone deacetylase HDA1

Gene

HDA1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: 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.

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 sitei206 – 2061By similarity

GO - Molecular functioni

GO - Biological processi

  • gene silencing by RNA Source: SGD
  • gene silencing involved in chronological cell aging Source: SGD
  • histone deacetylation Source: SGD
  • negative regulation of chromatin silencing involved in replicative cell aging Source: SGD
  • negative regulation of transcription by transcription factor localization Source: SGD
  • negative regulation of transcription from RNA polymerase II promoter Source: SGD
  • positive regulation of transcription from RNA polymerase II promoter Source: SGD
  • regulation of chromatin silencing at telomere Source: SGD
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Hydrolase, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciYEAST:G3O-33059-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Histone deacetylase HDA1 (EC:3.5.1.98)
Gene namesi
Name:HDA1
Ordered Locus Names:YNL021W
ORF Names:N2819
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome XIV

Organism-specific databases

CYGDiYNL021w.
EuPathDBiFungiDB:YNL021W.
SGDiS000004966. HDA1.

Subcellular locationi

GO - Cellular componenti

  • HDA1 complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 706706Histone deacetylase HDA1PRO_0000114738Add
BLAST

Proteomic databases

MaxQBiP53973.
PaxDbiP53973.
PeptideAtlasiP53973.

Expressioni

Gene expression databases

GenevestigatoriP53973.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
itself5EBI-8206,EBI-8206
HDA2Q066297EBI-8206,EBI-32800
HDA3Q066237EBI-8206,EBI-38663

Protein-protein interaction databases

BioGridi35805. 439 interactions.
DIPiDIP-1360N.
IntActiP53973. 17 interactions.
MINTiMINT-387448.
STRINGi4932.YNL021W.

Structurei

3D structure databases

ProteinModelPortaliP53973.
SMRiP53973. Positions 55-439.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni67 – 396330Histone deacetylaseAdd
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0123.
GeneTreeiENSGT00530000062809.
HOGENOMiHOG000161343.
InParanoidiP53973.
KOiK11407.
OMAiCYDDRMK.
OrthoDBiEOG75B8GB.

Family and domain databases

Gene3Di3.40.800.20. 1 hit.
InterProiIPR019154. Arb2_domain.
IPR000286. His_deacetylse.
IPR023801. His_deacetylse_dom.
IPR017321. Hist_deAcase_II_yeast.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF09757. Arb2. 1 hit.
PF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PIRSFiPIRSF037919. HDAC_II_yeast. 1 hit.
PRINTSiPR01270. HDASUPER.

Sequencei

Sequence statusi: Complete.

P53973-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDSVMVKKEV LENPDHDLKR KLEENKEEEN SLSTTSKSKR QVIVPVCMPK
60 70 80 90 100
IHYSPLKTGL CYDVRMRYHA KIFTSYFEYI DPHPEDPRRI YRIYKILAEN
110 120 130 140 150
GLINDPTLSG VDDLGDLMLK IPVRAATSEE ILEVHTKEHL EFIESTEKMS
160 170 180 190 200
REELLKETEK GDSVYFNNDS YASARLPCGG AIEACKAVVE GRVKNSLAVV
210 220 230 240 250
RPPGHHAEPQ AAGGFCLFSN VAVAAKNILK NYPESVRRIM ILDWDIHHGN
260 270 280 290 300
GTQKSFYQDD QVLYVSLHRF EMGKYYPGTI QGQYDQTGEG KGEGFNCNIT
310 320 330 340 350
WPVGGVGDAE YMWAFEQVVM PMGREFKPDL VIISSGFDAA DGDTIGQCHV
360 370 380 390 400
TPSCYGHMTH MLKSLARGNL CVVLEGGYNL DAIARSALSV AKVLIGEPPD
410 420 430 440 450
ELPDPLSDPK PEVIEMIDKV IRLQSKYWNC FRRRHANSGC NFNEPINDSI
460 470 480 490 500
ISKNFPLQKA IRQQQQHYLS DEFNFVTLPL VSMDLPDNTV LCTPNISESN
510 520 530 540 550
TIIIVVHDTS DIWAKRNVIS GTIDLSSSVI IDNSLDFIKW GLDRKYGIID
560 570 580 590 600
VNIPLTLFEP DNYSGMITSQ EVLIYLWDNY IKYFPSVAKI AFIGIGDSYS
610 620 630 640 650
GIVHLLGHRD TRAVTKTVIN FLGDKQLKPL VPLVDETLSE WYFKNSLIFS
660 670 680 690 700
NNSHQCWKEN ESRKPRKKFG RVLRCDTDGL NNIIEERFEE ATDFILDSFE

EWSDEE
Length:706
Mass (Da):80,070
Last modified:October 1, 1996 - v1
Checksum:i4E7069E66D03264D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71297 Genomic DNA. Translation: CAA95883.1.
BK006947 Genomic DNA. Translation: DAA10524.1.
PIRiS62933.
RefSeqiNP_014377.1. NM_001182860.1.

Genome annotation databases

EnsemblFungiiYNL021W; YNL021W; YNL021W.
GeneIDi855710.
KEGGisce:YNL021W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71297 Genomic DNA. Translation: CAA95883.1.
BK006947 Genomic DNA. Translation: DAA10524.1.
PIRiS62933.
RefSeqiNP_014377.1. NM_001182860.1.

3D structure databases

ProteinModelPortaliP53973.
SMRiP53973. Positions 55-439.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35805. 439 interactions.
DIPiDIP-1360N.
IntActiP53973. 17 interactions.
MINTiMINT-387448.
STRINGi4932.YNL021W.

Proteomic databases

MaxQBiP53973.
PaxDbiP53973.
PeptideAtlasiP53973.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYNL021W; YNL021W; YNL021W.
GeneIDi855710.
KEGGisce:YNL021W.

Organism-specific databases

CYGDiYNL021w.
EuPathDBiFungiDB:YNL021W.
SGDiS000004966. HDA1.

Phylogenomic databases

eggNOGiCOG0123.
GeneTreeiENSGT00530000062809.
HOGENOMiHOG000161343.
InParanoidiP53973.
KOiK11407.
OMAiCYDDRMK.
OrthoDBiEOG75B8GB.

Enzyme and pathway databases

BioCyciYEAST:G3O-33059-MONOMER.

Miscellaneous databases

NextBioi980058.
PROiP53973.

Gene expression databases

GenevestigatoriP53973.

Family and domain databases

Gene3Di3.40.800.20. 1 hit.
InterProiIPR019154. Arb2_domain.
IPR000286. His_deacetylse.
IPR023801. His_deacetylse_dom.
IPR017321. Hist_deAcase_II_yeast.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF09757. Arb2. 1 hit.
PF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PIRSFiPIRSF037919. HDAC_II_yeast. 1 hit.
PRINTSiPR01270. HDASUPER.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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. 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. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiHDA1_YEAST
AccessioniPrimary (citable) accession number: P53973
Secondary accession number(s): D6W1F8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: April 29, 2015
This is version 125 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 3050 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XIV
    Yeast (Saccharomyces cerevisiae) chromosome XIV: entries and gene names

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.