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Protein

Type-1 histone deacetylase 1

Gene

hdaA

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript 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 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).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
Binding sitei94 – 941SubstrateBy similarity
Active sitei136 – 1361Proton acceptorBy similarity
Binding sitei144 – 1441Substrate; via carbonyl oxygenBy similarity
Metal bindingi171 – 1711Divalent metal cationBy similarity
Metal bindingi173 – 1731Divalent metal cationBy similarity
Metal bindingi259 – 2591Divalent metal cationBy similarity
Binding sitei298 – 2981SubstrateBy similarity

GO - Molecular functioni

  1. metal ion binding Source: UniProtKB-KW
  2. NAD-dependent histone deacetylase activity (H3-K14 specific) Source: UniProtKB-EC
  3. NAD-dependent histone deacetylase activity (H3-K18 specific) Source: UniProtKB-EC
  4. NAD-dependent histone deacetylase activity (H3-K9 specific) Source: UniProtKB-EC
  5. NAD-dependent histone deacetylase activity (H4-K16 specific) Source: UniProtKB-EC

GO - Biological processi

  1. regulation of transcription, DNA-templated Source: UniProtKB-KW
  2. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Hydrolase, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Type-1 histone deacetylase 1 (EC:3.5.1.98)
Short name:
DdHdaA
Gene namesi
Name:hdaA
ORF Names:DDB_G0268024
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
ProteomesiUP000002195: Chromosome 1, UP000002195: Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0268024. hdaA.

Subcellular locationi

Nucleus By similarity. Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
  2. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 495495Type-1 histone deacetylase 1PRO_0000331369Add
BLAST

Expressioni

Developmental stagei

Expressed throughout growth and development.1 Publication

Interactioni

Protein-protein interaction databases

STRINGi44689.DDBDRAFT_0189724.

Structurei

3D structure databases

ProteinModelPortaliQ55FN5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi294 – 2974Poly-Gly
Compositional biasi457 – 48024Poly-AsnAdd
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0123.
InParanoidiQ55FN5.
KOiK06067.
OMAiVSIRAHD.
PhylomeDBiQ55FN5.

Family and domain databases

Gene3Di3.40.800.20. 1 hit.
InterProiIPR000286. His_deacetylse.
IPR003084. His_deacetylse_1.
IPR023801. His_deacetylse_dom.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PIRSFiPIRSF037913. His_deacetylse_1. 1 hit.
PRINTSiPR01270. HDASUPER.
PR01271. HISDACETLASE.

Sequencei

Sequence statusi: Complete.

Q55FN5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSTRKVSYFY DNEVGNHYYG PNHPMKPHRM RMTHDLVLNY GIYKKMQIFR
60 70 80 90 100
PRKASELELT NFHSDDYINF LKLVTPDNMH DYSKQLVKFN VREDCPVFDG
110 120 130 140 150
MYNFCQISSG GSIGCAVKVN SKESDVAINW AGGLHHAKKS EASGFCYTND
160 170 180 190 200
IVLSILELLK HHERVLYIDI DIHHGDGVEE AFYTTDRVMT VSFHKYGDYF
210 220 230 240 250
PGTGDVKDIG ADKGKYYSLN FPLKDGIDDE SYQSIFRPII RSVMDFYRPG
260 270 280 290 300
AVVIQCGADS LTGDRLGCFN LTLRGHAQCI EFLKSFNVPL VVLGGGGYTI
310 320 330 340 350
KNVARCWTYE TSILVDSELK DELPYNDYLE YYGPEYRLHI TPNNMENQNT
360 370 380 390 400
KDYLEKLKIQ LLENLRNLNH APAAAHHDIP PDSFNYSDDE DDEDPDVRIS
410 420 430 440 450
EADRDKKVHH QGELSDSDEE DGRRNYSNGL EATSTSRRNQ VSISAYDKER
460 470 480 490
PSYNSRNNNN NNNNNNNNNN NNNNNSNNNN SHHHNEDADV DMDSG
Length:495
Mass (Da):56,633
Last modified:May 24, 2005 - v1
Checksum:iB325100AB480CD63
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000003 Genomic DNA. Translation: EAL73465.1.
RefSeqiXP_647498.1. XM_642406.1.

Genome annotation databases

EnsemblProtistsiDDB0234190; DDB0234190; DDB_G0268024.
GeneIDi8616305.
KEGGiddi:DDB_G0268024.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000003 Genomic DNA. Translation: EAL73465.1.
RefSeqiXP_647498.1. XM_642406.1.

3D structure databases

ProteinModelPortaliQ55FN5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi44689.DDBDRAFT_0189724.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsiDDB0234190; DDB0234190; DDB_G0268024.
GeneIDi8616305.
KEGGiddi:DDB_G0268024.

Organism-specific databases

dictyBaseiDDB_G0268024. hdaA.

Phylogenomic databases

eggNOGiCOG0123.
InParanoidiQ55FN5.
KOiK06067.
OMAiVSIRAHD.
PhylomeDBiQ55FN5.

Family and domain databases

Gene3Di3.40.800.20. 1 hit.
InterProiIPR000286. His_deacetylse.
IPR003084. His_deacetylse_1.
IPR023801. His_deacetylse_dom.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF00850. Hist_deacetyl. 1 hit.
[Graphical view]
PIRSFiPIRSF037913. His_deacetylse_1. 1 hit.
PRINTSiPR01270. HDASUPER.
PR01271. HISDACETLASE.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The genome of the social amoeba Dictyostelium discoideum."
    Eichinger L., Pachebat J.A., Gloeckner G., Rajandream M.A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., Tunggal B., Kummerfeld S., Madera M., Konfortov B.A., Rivero F., Bankier A.T., Lehmann R., Hamlin N.
    , Davies R., Gaudet P., Fey P., Pilcher K., Chen G., Saunders D., Sodergren E.J., Davis P., Kerhornou A., Nie X., Hall N., Anjard C., Hemphill L., Bason N., Farbrother P., Desany B., Just E., Morio T., Rost R., Churcher C.M., Cooper J., Haydock S., van Driessche N., Cronin A., Goodhead I., Muzny D.M., Mourier T., Pain A., Lu M., Harper D., Lindsay R., Hauser H., James K.D., Quiles M., Madan Babu M., Saito T., Buchrieser C., Wardroper A., Felder M., Thangavelu M., Johnson D., Knights A., Loulseged H., Mungall K.L., Oliver K., Price C., Quail M.A., Urushihara H., Hernandez J., Rabbinowitsch E., Steffen D., Sanders M., Ma J., Kohara Y., Sharp S., Simmonds M.N., Spiegler S., Tivey A., Sugano S., White B., Walker D., Woodward J.R., Winckler T., Tanaka Y., Shaulsky G., Schleicher M., Weinstock G.M., Rosenthal A., Cox E.C., Chisholm R.L., Gibbs R.A., Loomis W.F., Platzer M., Kay R.R., Williams J.G., Dear P.H., Noegel A.A., Barrell B.G., Kuspa A.
    Nature 435:43-57(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AX4.
  2. "Histone deacetylases regulate multicellular development in the social amoeba Dictyostelium discoideum."
    Sawarkar R., Visweswariah S.S., Nellen W., Nanjundiah V.
    J. Mol. Biol. 391:833-848(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: DEVELOPMENTAL STAGE.

Entry informationi

Entry nameiHDA11_DICDI
AccessioniPrimary (citable) accession number: Q55FN5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: May 24, 2005
Last modified: January 7, 2015
This is version 67 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Dictyostelium discoideum
    Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
  2. SIMILARITY comments
    Index of protein domains and families

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.