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Protein

Type-2 histone deacetylase 1

Gene

hdaD

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
Active sitei1232 – 12321Proton acceptorBy similarity

GO - Molecular functioni

  1. NAD-dependent histone deacetylase activity (H3-K14 specific) Source: UniProtKB-EC
  2. NAD-dependent histone deacetylase activity (H3-K18 specific) Source: UniProtKB-EC
  3. NAD-dependent histone deacetylase activity (H3-K9 specific) Source: UniProtKB-EC
  4. 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

Names & Taxonomyi

Protein namesi
Recommended name:
Type-2 histone deacetylase 1 (EC:3.5.1.98)
Short name:
DdHdaD
Gene namesi
Name:hdaD
ORF Names:DDB_G0279267
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
ProteomesiUP000002195 Componentsi: Chromosome 3, Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0279267. hdaD.

Subcellular locationi

  1. Nucleus By similarity
  2. 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 – 14891489Type-2 histone deacetylase 1PRO_0000331371Add
BLAST

Expressioni

Developmental stagei

Down-regulated during terminal differentiation of cells into spores and stalk.1 Publication

Interactioni

Protein-protein interaction databases

STRINGi44689.DDBDRAFT_0205687.

Structurei

3D structure databases

ProteinModelPortaliQ54X15.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi135 – 14612Poly-AsnAdd
BLAST
Compositional biasi191 – 21323Poly-AsnAdd
BLAST
Compositional biasi222 – 2276Poly-Asn
Compositional biasi232 – 24413Poly-SerAdd
BLAST
Compositional biasi272 – 28110Poly-Asn
Compositional biasi284 – 29613Poly-AsnAdd
BLAST
Compositional biasi334 – 3374Poly-Ser
Compositional biasi357 – 3604Poly-Asn
Compositional biasi364 – 3685Poly-Asn
Compositional biasi371 – 39929Poly-AsnAdd
BLAST
Compositional biasi438 – 4447Poly-Asn
Compositional biasi486 – 55368Poly-AsnAdd
BLAST
Compositional biasi913 – 92917Poly-AsnAdd
BLAST
Compositional biasi959 – 99032Poly-AsnAdd
BLAST
Compositional biasi1001 – 10099Poly-Asn
Compositional biasi1328 – 13336Poly-Asp
Compositional biasi1339 – 136729Poly-AsnAdd
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0123.
InParanoidiQ54X15.
OMAiCPRIEDV.

Family and domain databases

Gene3Di3.40.800.20. 2 hits.
InterProiIPR023801. His_deacetylse_dom.
[Graphical view]
PfamiPF00850. Hist_deacetyl. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q54X15-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSTIHQVNEM NSRVGEKPAC CIGAARGHCT AHCPRIEDVL YSQRKGKTNK
60 70 80 90 100
GAQRWRCKAC GTKWTSKGII IQPPVVPDTI VNSIGFGNGP EEISMEQLRA
110 120 130 140 150
NARPYKKTKT GDNILQTSPF PSLFGNSIGM GLGGNNNNIN NNNNSNGSNS
160 170 180 190 200
SNNSHNGGSS PSGSPIPSPP SPVSFLQRNS NVFVPILPQS NGNNINNNNN
210 220 230 240 250
NNSNSNSNNI NSNSSNSMQL QNNNNNNGQL RSSSSSLSLS SSSSQLNSSS
260 270 280 290 300
NGNGSSRNLL TSQKSAQSLI GNINNNNNNN NIINNNSNNN TNNNNNIMNG
310 320 330 340 350
TTTSTTKPVV VGGPMQILNS VVNNSPTSSK PILSSSSQNL LYNSSGSIPQ
360 370 380 390 400
PSQSPQNNNN TTINNNNNTT NNNNNNNNSN NNNNSNNNNN NSNNNNINNV
410 420 430 440 450
ANGTPRPSLQ TSRLQGKLPS PQQYNTSPSH QQYPSPKNNN NSNNIIPIQS
460 470 480 490 500
TYGQPTPPPT KPPVSSKAPA VYHNVRVPSP NTTVDNNNNN NNNNNNNNNN
510 520 530 540 550
NNNNNNNNNN NNSNNNNNSN NNNNNINNNN NNNNNSNNNN NGNSNNNNNN
560 570 580 590 600
NSNYQQQHQY FSPNQNYIQQ QVQAVQTQQA QHILAQQQAQ AQQQYIQQLQ
610 620 630 640 650
LQQQTLAHAQ SQAAHQAQTL THSRHNDLLS PIDSQIWAPI QYSWIQTHYN
660 670 680 690 700
PSSSLLECLK RLINSVVVFS NELPVDQRLK MINFLTTLSS PSSESQYNTN
710 720 730 740 750
ASKQMLNCID NSVFNITKHY QMLYQSISKH YSMMEDSFIP LTEVYFDENE
760 770 780 790 800
INKFIHFSDQ FKIIEEQFEF ILRELSSIRD TLIIKRENIE KNIIESSKFL
810 820 830 840 850
NNSSNNDNGI EEIGLEQAKQ DTTRLLESLA PLETTLNSME IKFKSIQKEI
860 870 880 890 900
SMVIRVFSFF ELLYNIHINC HQTIVEKHSR QLSTYMIDVI QQSLYNCDVI
910 920 930 940 950
SVAYNRLKTG LFNSNNNNNN NNNNNNNNNE EDDQLIDTTN PFINKLSDLL
960 970 980 990 1000
SKYENISKNN NNNNNNNNNN NNNNNNNNNN NNNNNNNNRN RDRDREFERD
1010 1020 1030 1040 1050
NNSNNNNNNI EKERNRNNRI RDRDNMDIDN ISSFISNNQQ QHIGQSQSVQ
1060 1070 1080 1090 1100
QSSQLPKERK VMALYHTTCL DHLVPDDHPE SPKRLSSVIK AINDFSRQSD
1110 1120 1130 1140 1150
RLIIKNDPEE INDKWILTVH SPEYLRLLED LTEKLDANEI RPLNVNNDGA
1160 1170 1180 1190 1200
STGINQFSTS TPITTTGTAT VTPGSTTSST NGEQCEDGDT FVSKLSLHAA
1210 1220 1230 1240 1250
KRSAGATCQA IDNVMKGNVT SAFVAARPPG HHAGRDGLTS GTSSQGFCLL
1260 1270 1280 1290 1300
NHVCIGAKYA QLKYNLDKIA IIDFDVHHGN GTEEILSNDQ GFYFLSIHMF
1310 1320 1330 1340 1350
EEGFYPGSGG GVGSIGVVNL NEFNEQNDYD DDDNNNDVNN NNNNNNNNNN
1360 1370 1380 1390 1400
NNNNNNNNKN NNNNNSNSIT QQSTITNNSN CKGNIVNIPL DPKSSASSFL
1410 1420 1430 1440 1450
KAFSIIIDKL NDYQPELILI SCGFDAHMED HLASLCLLEE NYVEITRSLR
1460 1470 1480
RVADRWCKGR LVSILEGGYN INALRQCTIA HLSALSEDD
Length:1,489
Mass (Da):165,561
Last modified:May 24, 2005 - v1
Checksum:i8587B045FDC673B5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000030 Genomic DNA. Translation: EAL67782.1.
RefSeqiXP_641762.1. XM_636670.1.

Genome annotation databases

EnsemblProtistsiDDB0237655; DDB0237655; DDB_G0279267.
GeneIDi8621960.
KEGGiddi:DDB_G0279267.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000030 Genomic DNA. Translation: EAL67782.1.
RefSeqiXP_641762.1. XM_636670.1.

3D structure databases

ProteinModelPortaliQ54X15.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi44689.DDBDRAFT_0205687.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsiDDB0237655; DDB0237655; DDB_G0279267.
GeneIDi8621960.
KEGGiddi:DDB_G0279267.

Organism-specific databases

dictyBaseiDDB_G0279267. hdaD.

Phylogenomic databases

eggNOGiCOG0123.
InParanoidiQ54X15.
OMAiCPRIEDV.

Miscellaneous databases

PROiQ54X15.

Family and domain databases

Gene3Di3.40.800.20. 2 hits.
InterProiIPR023801. His_deacetylse_dom.
[Graphical view]
PfamiPF00850. Hist_deacetyl. 1 hit.
[Graphical view]
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 nameiHDA21_DICDI
AccessioniPrimary (citable) accession number: Q54X15
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: May 24, 2005
Last modified: April 29, 2015
This is version 57 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.