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Protein

Histone deacetylase 2

Gene

Hdac2

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -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 (By similarity). Forms transcriptional repressor complexes by associating with MAD, SIN3, YY1 and N-COR. Interacts in the late S-phase of DNA-replication with DNMT1 in the other transcriptional repressor complex composed of DNMT1, DMAP1, PCNA, CAF1. Deacetylates TSHZ3 and regulates its transcriptional repressor activity. Component of a RCOR/GFI/KDM1A/HDAC complex that suppresses, via histone deacetylase (HDAC) recruitment, a number of genes implicated in multilineage blood cell development. May be involved in the transcriptional repression of circadian target genes, such as PER1, mediated by CRY1 through histone deacetylation. Involved in MTA1-mediated transcriptional corepression of TFF1 and CDKN1A.By similarity3 Publications

Caution

Was originally thought to be S-nitrosylated and to interact with MTA1 (PubMed:20519513). However, this work was later retracted (PubMed:28314777). Nevertheless, other publications demonstrate that it is S-nitrosylated and there are several publications in the human ortholog demonstrating its interaction with MTA1 (PubMed:18754010, PubMed:20972425).1 Publication3 Publications

Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei142By similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionChromatin regulator, Hydrolase, Repressor
Biological processBiological rhythms, Transcription, Transcription regulation

Enzyme and pathway databases

BRENDAi3.5.1.98 3474

Names & Taxonomyi

Protein namesi
Recommended name:
Histone deacetylase 2 (EC:3.5.1.98)
Short name:
HD2
Alternative name(s):
YY1 transcription factor-binding protein
Gene namesi
Name:Hdac2
Synonyms:Yy1bp
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:1097691 Hdac2

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi152C → A: Does not affect S-nitrosylation. 1 Publication1
Mutagenesisi262C → A: Impairs S-nitrosylation. Abolishes S-nitrosylation; when associated with A-274. 1 Publication1
Mutagenesisi274C → A: Impairs S-nitrosylation. Abolishes S-nitrosylation; when associated with A-262. 1 Publication1

Chemistry databases

ChEMBLiCHEMBL3883302

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001146941 – 488Histone deacetylase 2Add BLAST488

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei75N6-acetyllysine; alternateBy similarity1
Cross-linki75Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateBy similarity
Modified residuei221N6-acetyllysineBy similarity1
Modified residuei262S-nitrosocysteine1 Publication1
Modified residuei274S-nitrosocysteine1 Publication1
Modified residuei394PhosphoserineCombined sources1
Modified residuei407PhosphoserineBy similarity1
Modified residuei422PhosphoserineCombined sources1
Modified residuei424PhosphoserineCombined sources1
Cross-linki439Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki452Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki458Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki462Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki478Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki481Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity

Post-translational modificationi

S-nitrosylated by GAPDH. In neurons, S-Nitrosylation at Cys-262 and Cys-274 does not affect the enzyme activity but abolishes chromatin-binding, leading to increases acetylation of histones and activate genes that are associated with neuronal development. In embryonic cortical neurons, S-Nitrosylation regulates dendritic growth and branching.3 Publications

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, S-nitrosylation, Ubl conjugation

Proteomic databases

EPDiP70288
MaxQBiP70288
PaxDbiP70288
PeptideAtlasiP70288
PRIDEiP70288

PTM databases

iPTMnetiP70288
PhosphoSitePlusiP70288

Expressioni

Gene expression databases

CleanExiMM_HDAC2

Interactioni

Subunit structurei

Interacts with SNW1, PELP1, ATR, DNMT1, MINT, HDAC10, HCFC1, NRIP1, KDM4A, CHFR and SAP30L. Part of the core histone deacetylase (HDAC) complex composed of HDAC1, HDAC2, RBBP4 and RBBP7. The core complex associates with MTA2, MBD3, MTA1L1, CHD3 and CHD4 to form the nucleosome remodeling and histone deacetylation (NuRD) complex, or with SIN3, SAP18 and SAP30 to form the SIN3 HDAC complex. Interacts (CK2 phosphorylated form) with SP3. Interacts with TSHZ3 (via its N-terminus). Interacts with APEX1; the interaction is not dependent on the acetylated status of APEX1. Component of a BHC histone deacetylase complex that contains HDAC1, HDAC2, HMG20B, KDM1A, RCOR1 and PHF21A. The BHC complex may also contain ZMYM2, ZNF217, ZMYM3, GSE1 and GTF2I. Part of a complex containing the core histones H2A, H2B, H3 and H4, DEK and unphosphorylated DAXX. Part of a complex containing ATR and CHD4. Forms a heterologous complex at least with YY1. Component of a mSin3A corepressor complex that contains SIN3A, SAP130, SUDS3, ARID4B, HDAC1 and HDAC2. Interacts with CBFA2T3, HDAC7, PRDM6, SAP30, SETDB1 and SUV39H1. Interacts with the H2AFY (via the non-histone region). Component of a RCOR/GFI/KDM1A/HDAC complex. Interacts directly with GFI1 and GFI1B. Part of a complex composed of TRIM28, HDAC1, HDAC2 and EHMT2. Interacts with PIMREG. Interacts with BCL6 (non-acetylated form). Part of a complex containing at least CDYL, MIER1, MIER2, HDAC1 and HDAC2. Interacts with CRY1, INSM1 and ZNF431. Interacts with NACC2 (By similarity). Interacts with MTA1, with a preference for sumoylated MTA1. Interacts with SIX3. Interacts with BEND3 (By similarity). Component of a histone deacetylase complex containing DNTTIP1, ZNF541, HDAC1 and HDAC2 (By similarity).By similarity14 Publications

Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

BioGridi200260, 58 interactors
ComplexPortaliCPX-3441 SIN3A histone deacetylase complex, ES cell-specific variant
CPX-3443 SIN3A histone deacetylase complex
CPX-3444 SIN3B histone deacetylase complex
CPX-953 MBD2/NuRD nucleosome remodeling and deacetylase complex
CPX-954 MBD3/NuRD nucleosome remodeling and deacetylase complex
CORUMiP70288
DIPiDIP-32854N
IntActiP70288, 41 interactors
MINTiP70288
STRINGi10090.ENSMUSP00000019911

Structurei

3D structure databases

ProteinModelPortaliP70288
SMRiP70288
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni9 – 322Histone deacetylaseAdd BLAST314

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi300 – 303Poly-Gly4

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1342 Eukaryota
COG0123 LUCA
HOGENOMiHOG000225180
HOVERGENiHBG057112
InParanoidiP70288
KOiK06067
PhylomeDBiP70288
TreeFamiTF106171

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

Sequence (1+)i

Sequence statusi: Complete.

This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All

P70288-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAYSQGGGKK KVCYYYDGDI GNYYYGQGHP MKPHRIRMTH NLLLNYGLYR
60 70 80 90 100
KMEIYRPHKA TAEEMTKYHS DEYIKFLRSI RPDNMSEYSK QMQRFNVGED
110 120 130 140 150
CPVFDGLFEF CQLSTGGSVA GAVKLNRQQT DMAVNWAGGL HHAKKSEASG
160 170 180 190 200
FCYVNDIVLA ILELLKYHQR VLYIDIDIHH GDGVEEAFYT TDRVMTVSFH
210 220 230 240 250
KYGEYFPGTG DLRDIGAGKG KYYAVNFPMR DGIDDESYGQ IFKPIISKVM
260 270 280 290 300
EMYQPSAVVL QCGADSLSGD RLGCFNLTVK GHAKCVEVAK TFNLPLLMLG
310 320 330 340 350
GGGYTIRNVA RCWTYETAVA LDCEIPNELP YNDYFEYFGP DFKLHISPSN
360 370 380 390 400
MTNQNTPEYM EKIKQRLFEN LRMLPHAPGV QMQAIPEDAV HEDSGDEDGE
410 420 430 440 450
DPDKRISIRA SDKRIACDEE FSDSEDEGEG GRRNVADHKK GAKKARIEED
460 470 480
KKETEDKKTD VKEEDKSKDN SGEKTDPKGA KSEQLSNP
Length:488
Mass (Da):55,302
Last modified:February 1, 1997 - v1
Checksum:iB9843D24A775157C
GO

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0R4J008A0A0R4J008_MOUSE
Histone deacetylase
Hdac2
488Annotation score:
Q8BQ10Q8BQ10_MOUSE
Histone deacetylase 2
Hdac2
304Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti289A → V in EDL04897 (Ref. 2) Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U31758 mRNA Translation: AAC52889.1
CH466540 Genomic DNA Translation: EDL04897.1
BC138517 mRNA Translation: AAI38518.1
CCDSiCCDS23783.1
RefSeqiNP_032255.2, NM_008229.2
UniGeneiMm.19806

Genome annotation databases

GeneIDi15182
KEGGimmu:15182
UCSCiuc007evf.1 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U31758 mRNA Translation: AAC52889.1
CH466540 Genomic DNA Translation: EDL04897.1
BC138517 mRNA Translation: AAI38518.1
CCDSiCCDS23783.1
RefSeqiNP_032255.2, NM_008229.2
UniGeneiMm.19806

3D structure databases

ProteinModelPortaliP70288
SMRiP70288
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi200260, 58 interactors
ComplexPortaliCPX-3441 SIN3A histone deacetylase complex, ES cell-specific variant
CPX-3443 SIN3A histone deacetylase complex
CPX-3444 SIN3B histone deacetylase complex
CPX-953 MBD2/NuRD nucleosome remodeling and deacetylase complex
CPX-954 MBD3/NuRD nucleosome remodeling and deacetylase complex
CORUMiP70288
DIPiDIP-32854N
IntActiP70288, 41 interactors
MINTiP70288
STRINGi10090.ENSMUSP00000019911

Chemistry databases

ChEMBLiCHEMBL3883302

PTM databases

iPTMnetiP70288
PhosphoSitePlusiP70288

Proteomic databases

EPDiP70288
MaxQBiP70288
PaxDbiP70288
PeptideAtlasiP70288
PRIDEiP70288

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi15182
KEGGimmu:15182
UCSCiuc007evf.1 mouse

Organism-specific databases

CTDi3066
MGIiMGI:1097691 Hdac2

Phylogenomic databases

eggNOGiKOG1342 Eukaryota
COG0123 LUCA
HOGENOMiHOG000225180
HOVERGENiHBG057112
InParanoidiP70288
KOiK06067
PhylomeDBiP70288
TreeFamiTF106171

Enzyme and pathway databases

BRENDAi3.5.1.98 3474

Miscellaneous databases

ChiTaRSiHdac2 mouse
PROiPR:P70288
SOURCEiSearch...

Gene expression databases

CleanExiMM_HDAC2

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
ProtoNetiSearch...

Entry informationi

Entry nameiHDAC2_MOUSE
AccessioniPrimary (citable) accession number: P70288
Secondary accession number(s): B2RRP3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: February 1, 1997
Last modified: November 7, 2018
This is version 187 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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