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Protein

Histone deacetylase B

Gene

hdaB

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed-Annotation score: -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). May play a role in the regulation of the timing of gene expression during the development and in the definition aspects of the phenotype that mediate social behavior in genetically heterogeneous groups.By similarity1 Publication

Catalytic activityi

Hydrolysis of an N6-acetyl-lysine residue of a histone to yield a deacetylated histone.

Enzyme regulationi

Its activity is inhibited by trichostatin A (TSA), a well known histone deacetylase inhibitor. Cytosolic activity is refractory to inhibition by TSA, while the nuclear activity is inhibited completely.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei102SubstrateBy similarity1
Active sitei144Proton acceptorBy similarity1
Binding sitei152Substrate; via carbonyl oxygenBy similarity1
Metal bindingi179Divalent metal cationBy similarity1
Metal bindingi181Divalent metal cationBy similarity1
Metal bindingi268Divalent metal cationBy similarity1
Binding sitei307SubstrateBy similarity1

GO - Molecular functioni

  • histone deacetylase activity Source: dictyBase
  • metal ion binding Source: UniProtKB-KW
  • NAD-dependent histone deacetylase activity (H3-K14 specific) Source: UniProtKB-EC

GO - Biological processi

  • histone deacetylation Source: dictyBase
  • regulation of transcription, DNA-templated Source: UniProtKB-KW
  • transcription, DNA-templated Source: UniProtKB-KW

Keywordsi

Molecular functionChromatin regulator, Hydrolase, Repressor
Biological processTranscription, Transcription regulation
LigandMetal-binding

Enzyme and pathway databases

ReactomeiR-DDI-3214815 HDACs deacetylate histones

Names & Taxonomyi

Protein namesi
Recommended name:
Histone deacetylase B
Short name:
DdHdaB
Alternative name(s):
Type-1 histone deacetylase 2 (EC:3.5.1.98)
Gene namesi
Name:hdaB
ORF Names:DDB_G0270338
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyostelidsDictyostelialesDictyosteliaceaeDictyostelium
Proteomesi
  • UP000002195 Componentsi: Chromosome 1, Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0270338 hdaB

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: UniProtKB-SubCell
  • nucleus Source: dictyBase

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Disruption phenotypei

Develop normally but when mixed with wild type cells they sporulate less efficiently than the wild type. Do not show major alterations in gross histone acetylation levels.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003313701 – 422Histone deacetylase BAdd BLAST422

Proteomic databases

PaxDbiQ55BW2

Expressioni

Developmental stagei

Expressed throughout growth and development.1 Publication

Interactioni

Protein-protein interaction databases

STRINGi44689.DDB0237652

Structurei

3D structure databases

ProteinModelPortaliQ55BW2
SMRiQ55BW2
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi303 – 306Poly-Gly4

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1342 Eukaryota
COG0123 LUCA
InParanoidiQ55BW2
KOiK11404
OMAiKRVCYFF
PhylomeDBiQ55BW2

Family and domain databases

Gene3Di3.40.800.20, 1 hit
InterProiView protein in InterPro
IPR000286 His_deacetylse
IPR003084 His_deacetylse_1
IPR023801 His_deacetylse_dom
IPR037138 His_deacetylse_dom_sf
IPR023696 Ureohydrolase_dom_sf
PANTHERiPTHR10625 PTHR10625, 1 hit
PfamiView protein in Pfam
PF00850 Hist_deacetyl, 1 hit
PIRSFiPIRSF037913 His_deacetylse_1, 1 hit
PRINTSiPR01270 HDASUPER
PR01271 HISDACETLASE
SUPFAMiSSF52768 SSF52768, 1 hit

Sequencei

Sequence statusi: Complete.

Q55BW2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEYNTILNNT SKTRVCYFFD QDVGNYFYGP YHPMKPHRLC LTNNLVLNYG
60 70 80 90 100
LHKKMHLYKA RPADAEDMLK FHSEDYVDFL ERVTPENINE WKDVKRFHIG
110 120 130 140 150
EDCPVFPGLY DYCSIYSGGS IEGALKLNHR MYDIAINWSG GLHHARKDEA
160 170 180 190 200
SGFCYVNDIV LAILELLKFH ARVLYIDIDV HHGDGVQEAF YLTDRVMTVS
210 220 230 240 250
FHKFGGDFFP GTGDIDEIGA KTGKLYSVNV PLADGIDDKN YLNIFKPVIQ
260 270 280 290 300
GVMDYYRPSV IVLQCGADSL RFDRLGCFNL TIKGHAECVR FVKSFNIPTL
310 320 330 340 350
VLGGGGYTVR NVARCWTYET SVCVDTEVNN ELPYNDYIQF YSPDFQLIPD
360 370 380 390 400
YTGLPFKYEN ANTKSYLESL RIKILENLRI LQWAPSVQIQ DVPPDIMPID
410 420
FDRDEDSKEN MDKRKKKHND FS
Length:422
Mass (Da):48,641
Last modified:May 24, 2005 - v1
Checksum:i732B1FFDAF4F21DC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000005 Genomic DNA Translation: EAL72519.1
RefSeqiXP_646719.1, XM_641627.1

Genome annotation databases

EnsemblProtistsiEAL72519; EAL72519; DDB_G0270338
GeneIDi8617692
KEGGiddi:DDB_G0270338

Similar proteinsi

Entry informationi

Entry nameiHDA12_DICDI
AccessioniPrimary (citable) accession number: Q55BW2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: May 24, 2005
Last modified: March 28, 2018
This is version 80 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health