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HDAC2 Gene

protein-coding   GIFtS: 75
GCID: GC06M114254

Histone Deacetylase 2

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Histone Deacetylase 21 2     YAF12
HD22 3     Transcriptional Regulator Homolog RPD32
EC 3.5.1.983 8     YY1-Associated Factor 12
RPD32     

External Ids:    HGNC: 48531   Entrez Gene: 30662   Ensembl: ENSG000001965917   OMIM: 6051645   UniProtKB: Q927693   

Export aliases for HDAC2 gene to outside databases

Previous GC identifers: GC06M114097 GC06M114284 GC06M114307 GC06M114368 GC06M111834


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for HDAC2 Gene:
This gene product belongs to the histone deacetylase family. Histone deacetylases act via the formation of large
multiprotein complexes, and are responsible for the deacetylation of lysine residues at the N-terminal regions of
core histones (H2A, H2B, H3 and H4). This protein forms transcriptional repressor complexes by associating with
many different proteins, including YY1, a mammalian zinc-finger transcription factor. Thus, it plays an important
role in transcriptional regulation, cell cycle progression and developmental events. Alternative splicing results
in multiple transcript variants. (provided by RefSeq, Apr 2010)

GeneCards Summary for HDAC2 Gene:
HDAC2 (histone deacetylase 2) is a protein-coding gene. GO annotations related to this gene include chromatin binding and sequence-specific DNA binding transcription factor activity. An important paralog of this gene is HDAC1.

UniProtKB/Swiss-Prot: HDAC2_HUMAN, Q92769
Function: 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. 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

summary for HDAC2 Gene:
Histone Deacetylases (HDACs) are a group of enzymes closely related to sirtuins. They catalyze the removal
of acetyl groups from lysine residues in histones and non-histone proteins, resulting in transcriptional
repression. In general, they do not act autonomously but as components of large multiprotein complexes, such
as pRb-E2F and mSin3A, that mediate important transcription regulatory pathways. There are three classes of
HDACs; classes 1, 2 and 4, which are closely related Zn2+-dependent enzymes. HDACs are ubiquitously
expressed and they can exist in the nucleus or cytosol. Their subcellular localization is effected by
protein-protein interactions (for example HDAC-14.3.3 complexes are retained in the cytosol) and by the
class to which they belong (class 1 HDACs are predominantly nuclear whilst class 2 HDACs shuttle between the
nucleus and cytosol). HDACs have a role in cell growth arrest, differentiation and death and this has led to
substantial interest in HDAC inhibitors as possible antineoplastic agents.

Gene Wiki entry for HDAC2 (Histone deacetylase 2) Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000006.11  NC_018917.2  NT_025741.16  
Regulatory elements:
   Regulatory transcription factor binding sites in the HDAC2 gene promoter:
         TBP   AP-1   ATF-2   TFIID   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidHDAC2 promoter sequence
   Search Chromatin IP Primers for HDAC2

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat HDAC2


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 6q21   Ensembl cytogenetic band:  6q21   HGNC cytogenetic band: 6q21

HDAC2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HDAC2 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M114254:  view genomic region     (about GC identifiers)

Start:
114,254,192 bp from pter      End:
114,332,472 bp from pter
Size:
78,281 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: HDAC2_HUMAN, Q92769 (See protein sequence)
Recommended Name: Histone deacetylase 2  
Size: 488 amino acids; 55364 Da
Subunit: 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. Component of a
RCOR/GFI/KDM1A/HDAC complex. Interacts directly with GFI1 and GFI1B. Interacts with SNW1, HDAC7, PRDM6, SAP30,
SETDB1 and SUV39H1. Interacts with the H2AFY (via the non-histone region). 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.
Interacts with ATR, CBFA2T3, DNMT1, MINT, HDAC10, HCFC1, NRIP1, KDM4A and PELP1. Component of a mSin3A
corepressor complex that contains SIN3A, SAP130, SUDS3, ARID4B, HDAC1 and HDAC2. Interacts with CHFR and SAP30L.
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. Part of a complex composed of TRIM28, HDAC1,
HDAC2 and EHMT2. Interacts with FAM64A. Interacts with BCL6 (non-acetylated form). Part of a complex containing
at least CDYL, MIER1, MIER2, HDAC1 and HDAC2. Interacts with ZNF431. Interacts with INSM1
Sequence caution: Sequence=AAH31055.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Sequence=BAG59420.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
3 PDB 3D structures from and Proteopedia for HDAC2:
3MAX (3D)        4LXZ (3D)        4LY1 (3D)    
Secondary accessions: B4DL58 E1P561 Q5SRI8 Q5SZ86 Q8NEH4

Explore the universe of human proteins at neXtProt for HDAC2: NX_Q92769

Explore proteomics data for HDAC2 at MOPED

Post-translational modifications: 

  • 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 (By similarity)1
  • Ubiquitination2 at Lys11, Lys67, Lys75, Lys90, Lys201, Lys243, Lys284, Lys362
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for HDAC2 (Q92769) (see all 28)
     AVVLQCG  HPMKPHR  LNYGLYR  QCGADSL 


    See HDAC2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001518.3  
    ENSEMBL proteins: 
     ENSP00000430432   ENSP00000430008   ENSP00000357621   ENSP00000417026   ENSP00000427861  
     ENSP00000429901   ENSP00000428599   ENSP00000428024   ENSP00000428653   ENSP00000429236  
     ENSP00000428861   ENSP00000428989   ENSP00000381331  
    Reactome Protein details: Q92769

    HDAC2 Human Recombinant Protein Products:

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    OriGene Protein Over-expression Lysate for HDAC2
    OriGene Custom MassSpec
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    Novus Biologicals HDAC2 Proteins
    Novus Biologicals HDAC2 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    ProSpec Recombinant Protein for HDAC2
    Cloud-Clone Corp. Proteins for HDAC2

     
    Search eBioscience for Proteins for HDAC2 

     
    antibodies-online proteins for HDAC2 (4 products) 

     
    antibodies-online peptides for HDAC2

    HDAC2 Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of HDAC2
    R&D Systems Antibodies for HDAC2 (Histone Deacetylase 2/HDAC2)
    Cell Signaling Technology (CST) Antibodies for HDAC2 
    OriGene Antibodies for HDAC2
    OriGene Custom Antibody Services for HDAC2
    Novus Biologicals HDAC2 Antibodies
    Abcam antibodies for HDAC2
    Cloud-Clone Corp. Antibodies for HDAC2
    ThermoFisher Antibody for HDAC2
    antibodies-online antibodies for HDAC2 (160 products) 

    HDAC2 Assay Products:

    EMD Millipore Kits and Assays for the Analysis of HDAC2
    OriGene Custom Assay Services for HDAC2
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for HDAC2
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for HDAC2
    Cloud-Clone Corp. CLIAs for HDAC2
    Search eBioscience for ELISAs for HDAC2 
    antibodies-online kits for HDAC2 (26 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR000286 His_deacetylse
     IPR003084 His_deacetylse_1
     IPR023801 His_deacetylse_dom

    Graphical View of Domain Structure for InterPro Entry Q92769

    ProtoNet protein and cluster: Q92769

    2 Blocks protein domains:
    IPB000286 Histone deacetylase superfamily signature
    IPB003084 Histone deacetylase signature


    UniProtKB/Swiss-Prot: HDAC2_HUMAN, Q92769
    Similarity: Belongs to the histone deacetylase family. HD type 1 subfamily


    Find genes that share domains with HDAC2           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: HDAC2_HUMAN, Q92769
    Function: 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. 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
    Catalytic activity: Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone

         Genatlas biochemistry entry for HDAC2:
    histone deacetyltransferase 2,ubiquitously expressed,binding to YY1 for negative regulation of
    transcription,modulator of chromatin structure

         Enzyme Number (IUBMB): EC 3.5.1.981 2

         Gene Ontology (GO): Selected molecular function terms (see all 17):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001047core promoter binding IEA--
    GO:0001103RNA polymerase II repressing transcription factor binding IPI--
    GO:0003682chromatin binding ISS--
    GO:0003700sequence-specific DNA binding transcription factor activity IEA--
    GO:0004407histone deacetylase activity IDA16642021
         
    Find genes that share ontologies with HDAC2           About GenesLikeMe


    Phenotypes:
         Selected MGI mutant phenotypes (inferred from 10 alleles(MGI details for Hdac2) (see all 18):
     behavior/neurological  cardiovascular system  cellular  digestive/alimentary  endocrine/exocrine gland 
     growth/size/body  hematopoietic system  homeostasis/metabolism  immune system  mortality/aging 
     muscle  nervous system  no phenotypic analysis  normal  reproductive system 

    Find genes that share phenotypes with HDAC2           About GenesLikeMe

    Animal Models:
         MGI mouse knock-outs for HDAC2: Hdac2tm1.2Eno Hdac2tm1.2Pmt Hdac2tm1.2Rdp

       genOway: Develop your customized and physiologically relevant rodent model for HDAC2

    miRNA
    Products:
        
    miRTarBase miRNAs that target HDAC2:
    hsa-mir-149-5p (MIRT045549), hsa-mir-1 (MIRT023724), hsa-mir-145-5p (MIRT007307)

    Block miRNA regulation of human, mouse, rat HDAC2 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate HDAC2 (see all 36):
    hsa-miR-4328 hsa-miR-632 hsa-miR-4275 hsa-miR-570 hsa-miR-489 hsa-miR-3613-3p hsa-miR-3148 hsa-miR-192*
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for HDAC2
    Predesigned siRNA for gene silencing in human, mouse, rat HDAC2

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for HDAC2

    Clone
    Products:
         
    OriGene clones in human, mouse for HDAC2 (see all 8)
    OriGene ORF clones in mouse, rat for HDAC2
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    GenScript: all cDNA clones in your preferred vector: HDAC2 (NM_001527)
    Sino Biological Human cDNA Clone for HDAC2
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for HDAC2
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDAC2

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for HDAC2
    Browse ESI BIO Cell Lines and PureStem Progenitors for HDAC2 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HDAC2


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    HDAC2_HUMAN, Q92769: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    mitochondrion3
    cytosol2
    endoplasmic reticulum2
    extracellular1

    Gene Ontology (GO): Selected cellular component terms (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000785chromatin ----
    GO:0000790nuclear chromatin ----
    GO:0000792heterochromatin IEA--
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm TAS--

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    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for HDAC2 About   (see all 50)  
    See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1Notch signaling pathway (KEGG)
    Notch signaling pathway0.84
    Delta-Notch Signaling Pathway0.33
    Notch Signaling Pathway0.84
    Notch Signaling0.30
    2RNA Polymerase I Promoter Opening
    RNA Polymerase I Transcription0.78
    RNA Polymerase I, RNA Polymerase III, and Mitochondrial Transcription0.73
    RNA Polymerase I Promoter Clearance0.78
    Alcoholism0.34
    3Cell cycle
    Cell cycle0.59
    Cell cycle0.59
    4p53 Signaling
    p53 Signaling0.38
    p53 Pathway0.38
    5Signaling by NOTCH1 PEST Domain Mutants in Cancer
    Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants0.79
    Constitutive Signaling by NOTCH1 PEST Domain Mutants0.79
    Signaling by NOTCH1 PEST Domain Mutants in Cancer0.79
    Signaling by NOTCH1 t(7;9)(NOTCH1-M1580 K2555) Translocation Mutant0.79
    Signaling by NOTCH1 in Cancer0.79
    FBXW7 Mutants and NOTCH1 in Cancer0.79
    Signaling by NOTCH10.79
    NOTCH1 Intracellular Domain Regulates Transcription0.68


    Find genes that share SuperPaths with HDAC2           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 R&D Systems Pathway for HDAC2
        Notch Signaling Pathways

    Selected Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for HDAC2 (see all 17)
        Calcium Mediated T-Cell Apoptosis
    DNA Methylation and Transcriptional Repression
    Nur77 Signaling in T-Cell
    BRCA1 Pathway
    Intracellular Calcium Signaling

    1 Cell Signaling Technology (CST) Pathway for HDAC2
        Chromatin Regulation / Acetylation

    Selected GeneGo (Thomson Reuters) Pathways for HDAC2 (see all 6)
        Transcription P53 signaling pathway
    Development NOTCH1-mediated pathway for NF-KB activity modulation
    Transcription Sin3 and NuRD in transcription regulation
    Transcription Ligand-Dependent Transcription of Retinoid-Target genes
    Immune response Function of MEF2 in T lymphocytes

    Selected BioSystems Pathways for HDAC2 (see all 12)
        Cell cycle
    Notch Signaling Pathway
    Neural Crest Differentiation
    Delta-Notch Signaling Pathway
    TNF-alpha/NF-kB Signaling Pathway

    2 Sino Biological Pathways for HDAC2
        Notch Signaling Pathway
    p53 Pathway

    Selected Reactome Pathways for HDAC2 (see all 7)
        Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants
    NOTCH1 Intracellular Domain Regulates Transcription
    Factors involved in megakaryocyte development and platelet production
    p75NTR negatively regulates cell cycle via SC1
    NoRC negatively regulates rRNA expression


    Selected Kegg Pathways  (Kegg details for HDAC2) (see all 10):
        Cell cycle
    Notch signaling pathway
    Thyroid hormone signaling pathway
    Huntington's disease
    Alcoholism

        Pathway & Disease-focused RT2 Profiler PCR Arrays including HDAC2: 
              Epigenetic Chromatin Modification Enzymes in human mouse rat
              Cancer Drug Targets in human mouse rat
              Nuclear Receptors & Coregulators in human mouse rat
              Huntington's Disease in human mouse rat
              Stem Cells in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for HDAC2

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for HDAC2 (Q927691, 2, 3 ENSP000003813314) via UniProtKB, MINT, STRING, and/or I2D (see all 1351)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HDAC1Q135471, 2, 3, ENSP000003626494EBI-301821,EBI-301834 MINT-8388497 MINT-6613731 MINT-8388512 MINT-7947479 MINT-7943970 MINT-7945693 MINT-6613746 MINT-7944011 MINT-7943765 MINT-6613715 MINT-6613697 MINT-8329598 I2D: score=5 STRING: ENSP00000362649
    HIST1H3AP684313, ENSP000003502754I2D: score=1 STRING: ENSP00000350275
    HIST1H3BP684313I2D: score=1 
    HIST1H3CP684313I2D: score=1 
    HIST1H3DP684313I2D: score=1 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 41):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IMP19041327
    GO:0006338chromatin remodeling IC17827154
    GO:0006344maintenance of chromatin silencing IMP19372552
    GO:0006351transcription, DNA-templated IEA--
    GO:0006476protein deacetylation ----

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    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Enzo Life Sciences drugs & compounds for HDAC2
    Selected ApexBio Compounds for HDAC2 (see all 29)     About this table
    CompoundAction CAS #
    AR-42 (OSU-HDAC42)Pan-HDAC inhibitor[935881-37-1]
    Belinostat (PXD101)Novel and potent hydroxamate-type HDAC inhibitor[414864-00-9]
    CI994 (Tacedinaline)HDAC1 and 3 inhibitor[112522-64-2]
    CUDC-101Multitargeted HDAC inhibitor[1012054-59-9]
    CUDC-907PI3K and HDAC inhibitor[1339928-25-4]
    DroxinostatSelective HDAC inhibitor[99873-43-5]
    Entinostat (MS-275,SNDX-275)Entinostat inhibits HDAC1 and HDAC3 but not HDAC8[209783-80-2]
    ITF2357 (Givinostat)HDAC inhibitor, inhibits class I and class II HDACs[732302-99-7]
    JNJ-26481585Potent pan-HDAC inhibitor[875320-29-9]
    LAQ824 (NVP-LAQ824,Dacinostat)Novel and potent HDAC inhibitor[404951-53-7]

    Compounds for HDAC2 available from Tocris Bioscience    About this table
    CompoundAction CAS #
    TCS HDAC6 20bSelective HDAC6 inhibitor[956154-63-5]
    LMK 235Selective HDAC4/HDAC5 inhibitor[1418033-25-6]
    Trichostatin AHistone deacetylase inhibitor[58880-19-6]
    TubacinHDAC6 inhibitor; inhibits alpha-tubulin deacetylation[1350555-93-9]
    Sodium 4-PhenylbutyrateHistone deacetylase inhibitor[1716-12-7]

    1 HMDB Compound for HDAC2    About this table
    CompoundSynonyms CAS #PubMed Ids
    Butyric acid1-Butyrate (see all 25)107-92-617258775

    5 DrugBank Compounds for HDAC2    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    OxtriphyllineCholine theophyllinate (see all 2)4499-40-5targetactivator12070353 15337792
    TheophyllineDimethylxanthine (see all 6)58-55-9targetactivator12070353 15337792
    AminophyllineAminophyllin (see all 4)317-34-0targetactivator12070353
    Lovastatin6 alpha-Methylcompactin (see all 4)75330-75-5targetother18381445
    VorinostatMK0683 (see all 7)149647-78-9targetinhibitor17694093

    Selected Novoseek inferred chemical compound relationships for HDAC2 gene (see all 25)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    suberoylanilide hydroxamic acid 71.4 2 19738609 (1), 18834886 (1)
    valproic acid 57.3 8 15477762 (2), 19318486 (2), 16294345 (1), 16583461 (1) (see all 5)
    butyrate 52.9 1 16849648 (1)
    depsipeptide 48.8 1 12208741 (1)
    theophylline 48.6 3 19482216 (1), 19812111 (1), 20008877 (1)
    5-aza-2'deoxycytidine 35.8 2 12646234 (1), 19557157 (1)
    lysine 31 8 20388487 (1), 19822520 (1), 19729656 (1), 19057998 (1)
    estrogen 20.8 3 16309230 (1), 19995069 (1), 17312152 (1)
    steroid 18.5 10 18927347 (2), 20388487 (2), 12727880 (1), 18421014 (1) (see all 7)
    quinpirole 16.8 1 10455328 (1)



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    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for HDAC2 gene: 
    NM_001527.3  

    Unigene Cluster for HDAC2:

    Histone deacetylase 2
    Hs.3352  [show with all ESTs]
    Unigene Representative Sequence: NR_033441
    18 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000519065 ENST00000523334 ENST00000519108 ENST00000368632 ENST00000520746
    ENST00000518756 ENST00000425835 ENST00000523628 ENST00000521610 ENST00000522371
    ENST00000521163 ENST00000518690 ENST00000523240 ENST00000521233 ENST00000520895
    ENST00000524334 ENST00000520170 ENST00000398283(uc003pwc.2 uc003pwe.2 uc003pwd.2)

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    hsa-miR-4328 hsa-miR-632 hsa-miR-4275 hsa-miR-570 hsa-miR-489 hsa-miR-3613-3p hsa-miR-3148 hsa-miR-192*
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      QuantiFast Probe-based Assays in human, mouse, rat HDAC2

    Additional mRNA sequence: 

    AK092156.1 AK097376.1 AK296856.1 BC013141.1 BC031055.1 NR_033441.1 NR_073443.1 U31814.1 

    18 DOTS entries:

    DT.40128904  DT.115844  DT.100028821  DT.100028822  DT.121381583  DT.100824032  DT.101985674  DT.40275841 
    DT.91770961  DT.100824031  DT.92044074  DT.99986284  DT.100716932  DT.100799477  DT.121381524  DT.121381586 
    DT.121381628  DT.91770959 

    Selected AceView cDNA sequences (see all 267):

    AU102852 AA125794 BM451862 BQ005969 AA704179 BU735923 CB134282 CA418047 
    BG163599 AW024015 BM697242 AA125908 AA127071 AA372626 CB136977 CR606645 
    CK902178 CA431381 BP335976 AV704505 CB159106 BQ675815 AA236462 CK902179 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for HDAC2 (see all 8)    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b · 9c ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18
    SP1:              -     -     -     -     -     -     -                 -                                                                                       
    SP2:                                -     -     -     -                 -                                                                                       
    SP3:                                -           -                                                                                                               
    SP4:                                      -     -     -                 -                                                                                       
    SP5:                                                  -                 -                                                                                       


    ECgene alternative splicing isoforms for HDAC2

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    HDAC2 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTTTATGTGA
    HDAC2 Expression
    About this image


    HDAC2 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 6) fully expand
     
     Brain (Nervous System)    fully expand to see all 2 entries
             Oligodendrocyte Precursor Cells Spinal Cord White Matter
     
     Epithelial Cells
             Primary Hair Placode Cells Hair Follicle
     
     Hair (Integumentary System)
             Primary Hair Placode Cells Hair Follicle
     
     Gonad (Reproductive System)
             Primordial Germ Cells Primitive Gonad
     
     Neural Tube (Nervous System)
             Oligodendrocyte Precursor Cells Motor Neural Progenitor Domain
    HDAC2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    HDAC2 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.3352

    UniProtKB/Swiss-Prot: HDAC2_HUMAN, Q92769
    Tissue specificity: Widely expressed; lower levels in brain and lung

        Pathway & Disease-focused RT2 Profiler PCR Arrays including HDAC2: 
              Epigenetic Chromatin Modification Enzymes in human mouse rat
              Cancer Drug Targets in human mouse rat
              Nuclear Receptors & Coregulators in human mouse rat
              Huntington's Disease in human mouse rat
              Stem Cells in human mouse rat

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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for HDAC2 gene from Selected species (see all 20)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Hdac21 , 5 histone deacetylase 21, 5 91.6(n)1
    99.59(a)1
      10 (19.44 cM)5
    151821  NM_008229.21  NP_032255.21 
     369745445 
    chicken
    (Gallus gallus)
    Aves HDAC21 histone deacetylase 2 85.66(n)
    98.16(a)
      395635  NM_204831.1  NP_990162.1 
    lizard
    (Anolis carolinensis)
    Reptilia HDAC26
    histone deacetylase 2
    98(a)
    1 ↔ 1
    1(187660274-187689509)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.250232 Xenopus laevis cDNA clone IMAGE6878180, partial cds 82.62(n)    BC054208.1 
    zebrafish
    (Danio rerio)
    Actinopterygii hdac11 histone deacetylase 1 75.49(n)
    89.29(a)
      192302  NM_173236.1  NP_775343.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Rpd33 chromatin silencing transcription
    co-repressor
    79(a)
    (best of 2)
      3 64B13   --
    worm
    (Caenorhabditis elegans)
    Secernentea hda-11 , 3 Yeast RPD3 protein like3
    hda-11
    64(a)
    (best of 2)3
    62.86(n)1
    65.32(a)1
      V(14528006-14529575)3
    1799591  NM_074198.71  NP_506599.11 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes RPD36
    Histone deacetylase; regulates transcription, sile...
    60(a)
    1 → many
    XIV(18001-19302) YNL330C
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons HDA61 HDA6 61.5(n)
    65.75(a)
      836431  NM_125705.3  NP_201116.1 
    rice
    (Oryza sativa)
    Liliopsida Os08g03441001 Os08g0344100 58.87(n)
    60.34(a)
      4345332  NM_001068131.1  NP_001061596.1 


    ENSEMBL Gene Tree for HDAC2 (if available)
    TreeFam Gene Tree for HDAC2 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for HDAC2 gene
    HDAC12  HDAC32  HDAC82  
    5 SIMAP similar genes for HDAC2 using alignment to 13 protein entries:     HDAC2_HUMAN (see all proteins):
    HDAC1    DKFZp686H12203    HDAC3    HDAC8    HDAC9

    Find genes that share paralogs with HDAC2           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for HDAC2
    PGOHUM00000242903


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for HDAC2 (see all 669)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1842291861,2
    C--114256940(+) TAACTA/GTTTGT 3 -- ds50010--------
    rs132034451,2
    C,F,A,H--114256944(+) TGTTTA/GTTCTA 3 -- ds500117Minor allele frequency- N:0.00EA NA NS WA CSA 792
    rs1151212361,2
    C--114257174(+) TTCTGG/TCTCTA 3 -- ds50011Minor allele frequency- T:0.01WA 118
    rs1899757951,2
    C--114257281(+) TAGTGG/TTATAA 3 -- ds50010--------
    rs608167991,2
    F--114257493(+) GCAATA/TGAGAA 3 -- ut31 nc-transcript-variant0--------
    rs1431593031,2
    C--114257553(+) TAGCC-/AATAATAA 3 -- cds1 nc-transcript-variant0--------
    rs2009521741,2
    C--114257558(+) AATAAC/TAACAA 3 -- ut31 nc-transcript-variant0--------
    rs1811955031,2
    --114257675(+) ATTCGC/TATCCT 3 -- ut31 nc-transcript-variant0--------
    rs1862642621,2
    --114257693(+) ATCAGG/TTCTCC 3 -- ut31 nc-transcript-variant0--------
    rs1464824311,2
    C--114257724(+) ACTATA/GACCTA 3 -- ut31 nc-transcript-variant0--------

    HapMap Linkage Disequilibrium report for HDAC2 (114254192 - 114332472 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for HDAC2:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2732596CNV Deletion23290073
    nsv520419CNV Loss19592680

    Site Specific Mutation Identification with PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 605164    OMIM disorders: --

    3 diseases from the University of Copenhagen DISEASES database for HDAC2:
    Chronic obstructive pulmonary disease     Asthma     Cancer

    Find genes that share disorders with HDAC2           About GenesLikeMe

    Selected Novoseek inferred disease relationships for HDAC2 gene (see all 22)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    pulmonary disease chronic obstructive 60.8 13 16452600 (1), 18927347 (1), 19410558 (1), 20008877 (1) (see all 12)
    colon cancer 40.4 12 15477762 (2), 18314102 (2), 15144953 (2), 15981215 (1) (see all 8)
    asthma 39.2 23 19812111 (3), 16604091 (2), 15738302 (2), 17720468 (1) (see all 12)
    cancer 32.2 19 19471575 (4), 18264134 (2), 16642021 (2), 16638127 (1) (see all 11)
    inflammation 32.1 23 19880520 (3), 17147010 (2), 15738302 (2), 15013452 (1) (see all 16)
    tumors 29.1 30 15865607 (3), 18951835 (3), 19318486 (2), 18834886 (2) (see all 17)
    retinoblastoma 26.2 1 15240517 (1)
    lung diseases 23.4 2 19812111 (1)
    adenoma 21.5 6 19057998 (4), 17043312 (1), 15144953 (1)
    breast cancer 16.7 5 12176973 (1), 19372552 (1), 17827154 (1), 18059533 (1)

    Genetic Association Database (GAD): HDAC2
    Human Genome Epidemiology (HuGE) Navigator: HDAC2 (10 documents)

    Export disorders for HDAC2 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for HDAC2 gene, integrated from 10 sources (see all 590):
    (articles sorted by number of sources associating them with HDAC2)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The transcriptional repressor Sp3 is associated with CK2- phosphorylated histone deacetylase 2. (PubMed id 12176973)1, 2, 9 Sun J.M.... Davie J.R. (J. Biol. Chem. 2002)
    2. Molecular association between ATR and two components of the nucleosome remodeling and deacetylating complex, HDAC2 and CHD4. (PubMed id 10545197)1, 2, 9 Schmidt D.R. and Schreiber S.L. (Biochemistry 1999)
    3. DNMT1 binds HDAC2 and a new co-repressor, DMAP1, to form a complex at replication foci. (PubMed id 10888872)1, 2, 9 Rountree M.R.... Baylin S.B. (Nat. Genet. 2000)
    4. Human histone deacetylase 2, HDAC2 (Human RPD3), is localized to 6q21 by radiation hybrid mapping. (PubMed id 9782097)1, 3, 9 Betz R....EkstrAPm T.J. (Genomics 1998)
    5. Sharp, an inducible cofactor that integrates nuclear receptor repression and activation. (PubMed id 11331609)1, 2, 9 Shi Y.... Evans R.M. (Genes Dev. 2001)
    6. Maintenance of silent chromatin through replication requires SWI/SNF- like chromatin remodeler SMARCAD1. (PubMed id 21549307)1, 2 Rowbotham S.P.... Mermoud J.E. (Mol. Cell 2011)
    7. HDAC2 expression and variable number of repeats in exon 1 of the HDAC2 gene in corticotroph adenomas. (PubMed id 20346000)1, 4 Evang J.A....Berg J.P. (Clin. Endocrinol. (Oxf) 2010)
    8. Combination of polymorphisms within the HDAC1 and HDAC3 gene predict tumor recurrence in hepatocellular carcinoma patients that have undergone transplant therapy. (PubMed id 20731616)1, 4 Yang Z....Zheng S.S. (Clin. Chem. Lab. Med. 2010)
    9. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
    10. Evaluating new candidate SNPs as low penetrance risk factors in sporadic breast cancer: a two-stage Spanish case-control study. (PubMed id 18950845)1, 4 Vega A....Carracedo A. (Gynecol. Oncol. 2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 3066 HGNC: 4853 AceView: HDAC2 Ensembl:ENSG00000196591 euGenes: HUgn3066
    ECgene: HDAC2 Kegg: 3066 H-InvDB: HDAC2

    (According to HUGE)
    About This Section

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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for HDAC2 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for HDAC2 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for HDAC2 gene:
    Search GeneIP for patents involving HDAC2

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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