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HDAC5 Gene

protein-coding   GIFtS: 69
GCID: GC17M042159

Histone Deacetylase 5

  See related diseases
at  

(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 51 2
Antigen NY-CO-92 3
HD52 3
EC 3.5.1.983 8
NY-CO-92
KIAA06003

External Ids:    HGNC: 140681   Entrez Gene: 100142   Ensembl: ENSG000001088407   OMIM: 6053155   UniProtKB: Q9UQL63   

Export aliases for HDAC5 gene to outside databases

Previous GC identifers: GC17M041896 GC17M044331 GC17M042164 GC17M042629 GC17M039509 GC17M037918


(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 HDAC5 Gene:
Histones play a critical role in transcriptional regulation, cell cycle progression, and developmental events.
Histone acetylation/deacetylation alters chromosome structure and affects transcription factor access to DNA. The
protein encoded by this gene belongs to the class II histone deacetylase/acuc/apha family. It possesses histone
deacetylase activity and represses transcription when tethered to a promoter. It coimmunoprecipitates only with
HDAC3 family member and might form multicomplex proteins. It also interacts with myocyte enhancer factor-2 (MEF2)
proteins, resulting in repression of MEF2-dependent genes. This gene is thought to be associated with colon
cancer. Two transcript variants encoding different isoforms have been found for this gene. (provided by RefSeq,
Jul 2008)

GeneCards Summary for HDAC5 Gene:
HDAC5 (histone deacetylase 5) is a protein-coding gene. Diseases associated with HDAC5 include intellectual disability, and herpes simplex. GO annotations related to this gene include transcription regulatory region DNA binding and transcription factor binding. An important paralog of this gene is HDAC9.

UniProtKB/Swiss-Prot: HDAC5_HUMAN, Q9UQL6
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. Involved in muscle maturation by repressing transcription of myocyte
enhancer MEF2C. During muscle differentiation, it shuttles into the cytoplasm, allowing the expression of myocyte
enhancer factors

summary for HDAC5 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 HDAC5 (Histone deacetylase 5) 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:
NC_000017.11  NT_010783.16  NC_018928.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the HDAC5 gene promoter:
         MyoD   Nkx2-5   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): HDAC5 promoter sequence
   Search Chromatin IP Primers for HDAC5

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat HDAC5


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

Entrez Gene cytogenetic band: 17q21   Ensembl cytogenetic band:  17q21.31   HGNC cytogenetic band: 17q21

HDAC5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HDAC5 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M042159:  view genomic region     (about GC identifiers)

Start:
42,154,114 bp from pter      End:
42,201,070 bp from pter
Size:
46,957 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: HDAC5_HUMAN, Q9UQL6 (See protein sequence)
Recommended Name: Histone deacetylase 5  
Size: 1122 amino acids; 121978 Da
Subunit: Interacts with AHRR, BAHD1, BCOR, HDAC7, HDAC9, CTBP1, MEF2C, NCOR2, NRIP1, PHB2 and a 14-3-3 chaperone
protein. Interacts with BCL6, DDIT3/CHOP, GRK5, KDM5B and MYOCD
Sequence caution: Sequence=AAC18040.1; Type=Frameshift; Positions=1085; Sequence=BAA25526.2; Type=Erroneous
initiation; Note=Translation N-terminally shortened;
Secondary accessions: C9JFV9 O60340 O60528 Q96DY4
Alternative splicing: 3 isoforms:  Q9UQL6-1   Q9UQL6-2   Q9UQL6-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for HDAC5: NX_Q9UQL6

Explore proteomics data for HDAC5 at MOPED

Post-translational modifications: 

  • Phosphorylated by AMPK, CaMK1, SIK1 and PRKD1 at Ser-259 and Ser-498. The phosphorylation is required for the
    export to the cytoplasm and inhibition. Phosphorylated by the PKC kinases PKN1 and PKN2, impairing nuclear
    import. Phosphorylated by GRK5, leading to nuclear export of HDAC5 and allowing MEF2-mediated transcription (By
    similarity)1
  • Ubiquitinated. Polyubiquitination however does not lead to its degradation1
  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for HDAC5 (Q9UQL6) (see all 21)
     SGPSSPN  HHGNGTQ  HTLLYGT  QSSPAAP 


    See HDAC5 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001015053.1  NP_005465.2  

    ENSEMBL proteins: 
     ENSP00000225983   ENSP00000337290   ENSP00000468004   ENSP00000465227   ENSP00000465229  
     ENSP00000468485   ENSP00000465393   ENSP00000377244  
    Reactome Protein details: Q9UQL6

    HDAC5 Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
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    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    Browse OriGene Protein Over-expression Lysates
    OriGene Custom MassSpec
    OriGene Custom Protein Services for HDAC5
    GenScript Custom Purified and Recombinant Proteins Services for HDAC5
    Novus Biologicals HDAC5 Protein
    Novus Biologicals HDAC5 Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for HDAC5

    HDAC5 Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of HDAC5
    Browse R&D Systems for Antibodies
    Cell Signaling Technology (CST) Antibodies for HDAC5 
    OriGene Antibodies for HDAC5
    OriGene Custom Antibody Services for HDAC5
    Novus Biologicals HDAC5 Antibodies
    Abcam antibodies for HDAC5 (Q9UKV0, Q9UQL6)
    Cloud-Clone Corp. Antibodies for HDAC5
    ThermoFisher Antibodies for HDAC5
    LSBio Antibodies in human, mouse, rat for HDAC5

    HDAC5 Assay Products:

    EMD Millipore Kits and Assays for the Analysis of HDAC5
    OriGene Custom Assay Services for HDAC5
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for HDAC5
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for HDAC5
    Cloud-Clone Corp. CLIAs for HDAC5


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    4 InterPro protein domains:
     IPR024643 Hist_deacetylase_Gln_rich_N
     IPR017320 Histone_deAcase_II_euk
     IPR000286 His_deacetylse
     IPR023801 His_deacetylse_dom

    Graphical View of Domain Structure for InterPro Entry Q9UQL6

    ProtoNet protein and cluster: Q9UQL6

    1 Blocks protein domain: IPB000286 Histone deacetylase superfamily signature

    UniProtKB/Swiss-Prot: HDAC5_HUMAN, Q9UQL6
    Domain: The nuclear export sequence mediates the shuttling between the nucleus and the cytoplasm (By similarity)
    Similarity: Belongs to the histone deacetylase family. HD type 2 subfamily


    HDAC5 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, 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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: HDAC5_HUMAN, Q9UQL6
    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. Involved in muscle maturation by repressing transcription of myocyte
    enhancer MEF2C. During muscle differentiation, it shuttles into the cytoplasm, allowing the expression of myocyte
    enhancer factors
    Catalytic activity: Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone

         Enzyme Number (IUBMB): EC 3.5.1.981 2

         Gene Ontology (GO): Selected molecular function terms (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003714transcription corepressor activity IEA--
    GO:0004407histone deacetylase activity IDA10869435
    GO:0005080protein kinase C binding IPI--
    GO:0005515protein binding IPI10869435
    GO:0008134transcription factor binding IPI19071119
         
    HDAC5 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for HDAC5:
     Upregulation of Wnt/beta-caten 

         5 MGI mutant phenotypes (inferred from 1 allele(MGI details for Hdac5):
     cardiovascular system  growth/size/body  mortality/aging  muscle  renal/urinary system 

    HDAC5 for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for HDAC5
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for HDAC5

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for HDAC5
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for HDAC5

    miRNA
    Products:
        
    miRTarBase miRNAs that target HDAC5:
    hsa-let-7a-5p (MIRT052514), hsa-mir-26b-5p (MIRT029704)

    Block miRNA regulation of human, mouse, rat HDAC5 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate HDAC5 (see all 40):
    hsa-miR-411* hsa-miR-3685 hsa-miR-3164 hsa-miR-379* hsa-miR-1197 hsa-miR-128 hsa-miR-134 hsa-miR-30d
    SwitchGear 3'UTR luciferase reporter plasmidHDAC5 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for HDAC5
    Predesigned siRNA for gene silencing in human, mouse, rat HDAC5

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for HDAC5

    Clone
    Products:
         
    OriGene clones in human, mouse for HDAC5 (see all 11)
    OriGene ORF clones in mouse, rat for HDAC5
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): HDAC5 (NM_001015053)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for HDAC5
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDAC5

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for HDAC5
    Browse ESI BIO Cell Lines and PureStem Progenitors for HDAC5 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HDAC5


    (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
    HDAC5_HUMAN, Q9UQL6: Nucleus. Cytoplasm. Note=Shuttles between the nucleus and the cytoplasm. In muscle cells, it
    shuttles into the cytoplasm during myocyte differentiation. The export to cytoplasm depends on the interaction
    with a 14-3-3 chaperone protein and is due to its phosphorylation at Ser-259 and Ser-498 by AMPK, CaMK1 and SIK1
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    golgi apparatus4
    cytosol3

    Gene Ontology (GO): Selected cellular component terms (see all 9):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000118histone deacetylase complex TAS12711221
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm TAS--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA--

    HDAC5 for ontologies           About GeneDecksing


    (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 HDAC5 About   (see all 30)  
    See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1Signaling 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
    2Cyclins and Cell Cycle Regulation
    Cyclins and Cell Cycle Regulation0.67
    G1-S Phase Transition0.67
    3PEDF Induced Signaling
    PGC1Alpha Pathway0.51
    Glucocorticoid Receptor Signaling0.43
    4Immune response Function of MEF2 in T lymphocytes
    Development Role of HDAC and calcium calmodulin dependent kinase CaMK in control of skeletal myogenesis0.38
    Immune response Function of MEF2 in T lymphocytes0.38
    5Macrophage Differentiation and Growth Inhibition by METS
    Macrophage Differentiation and Growth Inhibition by METS0.30
    DNA Methylation and Transcriptional Repression0.30

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    Selected Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for HDAC5 (see all 16)
        DNA Methylation and Transcriptional Repression
    Protein Acetylation and Deacetylation
    BRCA1 Pathway
    Glucocorticoid Receptor Signaling
    Intracellular Calcium Signaling

    1 Cell Signaling Technology (CST) Pathway for HDAC5
        Chromatin Regulation / Acetylation

    4 GeneGo (Thomson Reuters) Pathways for HDAC5
        Development Role of HDAC and calcium/calmodulin-dependent kinase (CaMK) in control of skeletal myogenesis
    Immune response Function of MEF2 in T lymphocytes
    Signal transduction Calcium signaling
    Signal transduction IP3 signaling

    Selected BioSystems Pathways for HDAC5 (see all 6)
        MicroRNAs in cardiomyocyte hypertrophy
    Cell cycle
    Neural Crest Differentiation
    B Cell Receptor Signaling Pathway
    Signaling events mediated by HDAC Class I

    3 Reactome Pathways for HDAC5
        Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants
    NOTCH1 Intracellular Domain Regulates Transcription
    Constitutive Signaling by NOTCH1 PEST Domain Mutants


    3 Kegg Pathways  (Kegg details for HDAC5):
        Alcoholism
    Epstein-Barr virus infection
    Viral carcinogenesis


    HDAC5 for pathways           About GeneDecksing

        Pathway & Disease-focused RT2 Profiler PCR Arrays including HDAC5: 
              Epigenetic Chromatin Modification Enzymes in human mouse rat
              Skeletal Muscle: Myogenesis & Myopathy in human mouse rat
              Nuclear Receptors & Coregulators in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Hematopoiesis in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for HDAC5

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

    Selected Interacting proteins for HDAC5 (Q9UQL61, 2, 3 ENSP000002259834) via UniProtKB, MINT, STRING, and/or I2D (see all 483)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4LP628053, ENSP000003482584I2D: score=2 STRING: ENSP00000348258
    HIST4H4P628053, ENSP000003507674I2D: score=2 STRING: ENSP00000350767
    HIST1H4AP628053I2D: score=2 
    HIST1H4BP628053I2D: score=2 
    HIST1H4CP628053I2D: score=2 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 28):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IMP10983972
    GO:0002076osteoblast development IEA--
    GO:0006325chromatin organization TAS12711221
    GO:0006338chromatin remodeling TAS10220385
    GO:0006342chromatin silencing TAS10869435

    HDAC5 for ontologies           About GeneDecksing



    (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
       Browse drugs & compounds from Enzo Life Sciences
    Selected ApexBio Compounds for HDAC5 (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 HDAC5 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 HDAC5    About this table
    CompoundSynonyms CAS #PubMed Ids
    Butyric acid1-Butyrate (see all 25)107-92-617258775

    5 Novoseek inferred chemical compound relationships for HDAC5 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 28.9 17 12641737 (2), 16511602 (2), 11081517 (1), 16511595 (1) (see all 10)
    inositol 1,4,5 trisphosphate 27.3 5 18218981 (2), 16511602 (1)
    serine 21.3 2 16584705 (1)
    glucose 0 2 18435282 (2)
    zinc 0 1 16946011 (1)



    HDAC5 for compounds           About GeneDecksing



    (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,
    Conferences by KenesGroup, 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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for HDAC5 gene (3 alternative transcripts): 
    NM_001015053.1  NM_005474.4  NM_139205.1  

    Unigene Cluster for HDAC5:

    Histone deacetylase 5
    Hs.438782  [show with all ESTs]
    Unigene Representative Sequence: NM_001015053
    13 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000225983(uc002iff.1) ENST00000336057(uc010czp.1) ENST00000586802
    ENST00000586339 ENST00000592385 ENST00000593013 ENST00000588419 ENST00000588261
    ENST00000587776 ENST00000588703 ENST00000591714 ENST00000587135 ENST00000393622(uc002ifd.1 uc002ife.1 uc002ifg.1 uc002ifh.2)

    miRNA
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    Block miRNA regulation of human, mouse, rat HDAC5 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate HDAC5 (see all 40):
    hsa-miR-411* hsa-miR-3685 hsa-miR-3164 hsa-miR-379* hsa-miR-1197 hsa-miR-128 hsa-miR-134 hsa-miR-30d
    SwitchGear 3'UTR luciferase reporter plasmidHDAC5 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for HDAC5
    Predesigned siRNA for gene silencing in human, mouse, rat HDAC5
    Clone
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    OriGene clones in human, mouse for HDAC5 (see all 11)
    OriGene ORF clones in mouse, rat for HDAC5
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): HDAC5 (NM_001015053)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for HDAC5
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat HDAC5
    Primer
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    OriGene qPCR primer pairs and template standards for HDAC5
    OriGene qSTAR qPCR primer pairs in human, mouse for HDAC5
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat HDAC5
      QuantiTect SYBR Green Assays in human, mouse, rat HDAC5
      QuantiFast Probe-based Assays in human, mouse, rat HDAC5

    Additional mRNA sequence: 

    AB011172.2 AB177853.1 AF039691.1 AF132608.1 AK027734.1 AK075095.1 AK093150.1 AK098202.1 
    AK294760.1 BC011260.2 BC013140.1 BC038423.1 BC041914.1 BC051824.1 

    18 DOTS entries:

    DT.445772  DT.408137  DT.100822778  DT.95287399  DT.92015946  DT.97859864  DT.99933441  DT.102827414 
    DT.91981933  DT.100037211  DT.100803218  DT.100822779  DT.100822784  DT.216885  DT.91740724  DT.91815259 
    DT.95287404  DT.99995779 

    Selected AceView cDNA sequences (see all 298):

    BC038423 AF132608 BC013140 BM263203 AA729237 BM013846 NM_005474 BE794912 
    BQ880867 BC011260 BQ228088 CA976021 BQ670193 BQ896105 BF589917 AI096560 
    CA867071 CD368848 BE886659 BM983511 NM_139205 AB011172 AI418847 BM354202 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for HDAC5 (see all 11)    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b · 16c ^ 17 ^ 18 ^ 19 ^
    SP1:                                                                                                                          -                                 
    SP2:                                                                          -                                                                                 
    SP3:                                                              -     -                                                                                       
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                            

    ExUns: 20 ^ 21a · 21b ^ 22 ^ 23
    SP1:                              
    SP2:                              
    SP3:                              
    SP4:                              
    SP5:                              


    ECgene alternative splicing isoforms for HDAC5

    (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)
    About This Section

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    HDAC5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    HDAC5 Expression
    About this image


    HDAC5 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 2) fully expand
     
     Blood (Hematopoietic System)
             Hematopoietic Stem Cells Hematopoietic Bone Marrow
     
     Ovary (Reproductive System)
    HDAC5 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    HDAC5 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.438782

    UniProtKB/Swiss-Prot: HDAC5_HUMAN, Q9UQL6
    Tissue specificity: Ubiquitous

        Pathway & Disease-focused RT2 Profiler PCR Arrays including HDAC5: 
              Epigenetic Chromatin Modification Enzymes in human mouse rat
              Skeletal Muscle: Myogenesis & Myopathy in human mouse rat
              Nuclear Receptors & Coregulators in human mouse rat
              Inflammatory Response & Autoimmunity 384HT in human mouse rat
              Hematopoiesis 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 animals and fungi.

    Orthologs for HDAC5 gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Hdac51 , 5 histone deacetylase 51, 5 90.47(n)1
    94.33(a)1
      11 (65.82 cM)5
    151841  NM_010412.31  NP_034542.31 
     1021944325 
    lizard
    (Anolis carolinensis)
    Reptilia HDAC56
    histone deacetylase 5
    81(a)
    1 ↔ 1
    6(78408435-78516214)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia hdac51 histone deacetylase 5 67.19(n)
    71.25(a)
      100487783  XM_002935540.2  XP_002935586.2 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5574861 histone deacetylase 5-like 68.46(n)
    73.01(a)
      557486  XM_680567.6  XP_685659.5 
    fruit fly
    (Drosophila melanogaster)
    Insecta HDAC43 histone deacetylase 55(a)   11E8   --
    worm
    (Caenorhabditis elegans)
    Secernentea hda-43 Expression: mu_bod, hypodermal, seam
    cells, amphid more
    51(a)
    (best of 2)
      X(16771247-16775220)   --
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes HDA16
    Putative catalytic subunit of a class II histone d...
    9(a)
    1 → many
    XIV(593227-595347) YNL021W


    ENSEMBL Gene Tree for HDAC5 (if available)
    TreeFam Gene Tree for HDAC5 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for HDAC5 gene
    HDAC92  HDAC62  HDAC72  HDAC42  HDAC102  
    6 SIMAP similar genes for HDAC5 using alignment to 5 protein entries:     HDAC5_HUMAN (see all proteins):
    KIAA0600    MGC16025    HDAC4    HDAC9    HDAC7    DKFZp779K1053

    HDAC5 for paralogs           About GeneDecksing



    (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 HDAC5 (see all 1047)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs30883471,2
    C,F,H--42154331(+) CCATCC/TCCCAG 2 -- ut3115Minor allele frequency- T:0.10MN NS NA WA 2236
    rs1844591371,2
    --42154355(+) AAACAC/TACAAG 2 -- ut310--------
    rs799574831,2
    C--42154431(+) CCCCAG/TAGGAT 2 -- ut310--------
    rs3751711,2
    C,F,A,H--42154470(-) CTATCT/CCCAGG 2 -- ut31 ese326Minor allele frequency- C:0.27MN EA NA NS CSA WA 4155
    rs1502271881,2
    C--42154838(+) CTCCCC/TGCAGC 2 -- ut310--------
    rs1145802471,2
    C--42155098(+) TGAGGA/CGTGTG 2 -- ut310--------
    rs340568631,2
    C,F--42155137(+) AGGCCA/TCAGCT 2 -- ut314Minor allele frequency- T:0.10NA WA 124
    rs1388296061,2
    --42155182(+) AGGAAA/GGAGGA 2 -- ut310--------
    rs1814114981,2
    --42155216(+) GAGGAA/CGAAAG 2 -- ut310--------
    rs798507711,2
    C,F--42155381(+) GCACCG/AACTTC 2 -- ut311Minor allele frequency- A:0.04EA 120

    HapMap Linkage Disequilibrium report for HDAC5 (42154114 - 42201070 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for HDAC5:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv908269CNV Loss21882294
    nsv833454CNV Loss17160897
    nsv833455CNV Loss17160897
    nsv908270CNV Loss21882294

    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, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 605315    OMIM disorders: --

    18 diseases for HDAC5:    
    About MalaCards
    intellectual disability    herpes simplex    huntington's disease    myopathy
    acute myeloid leukemia    astrocytoma    chronic lymphocytic leukemia    myeloid leukemia
    hypoxia    leukemia    asthma    neuroblastoma
    endotheliitis    prostatitis    prostate cancer    alzheimer's disease
    breast cancer    neuronitis


    HDAC5 for disorders           About GeneDecksing

    3 Novoseek inferred disease relationships for HDAC5 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    cardiac hypertrophy 59.6 10 20181743 (1), 16511595 (1), 18632988 (1), 15367659 (1) (see all 6)
    hypertrophy 34.7 5 18632988 (2), 15572669 (1), 15367659 (1), 16556869 (1)
    heart failure 17.1 5 18218981 (2), 16511595 (1), 18632988 (1)

    Genetic Association Database (GAD): HDAC5
    Human Genome Epidemiology (HuGE) Navigator: HDAC5 (8 documents)

    Export disorders for HDAC5 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 HDAC5 gene, integrated from 10 sources (see all 178):
    (articles sorted by number of sources associating them with HDAC5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Three proteins define a class of human histone deacetylases related to yeast Hda1p. (PubMed id 10220385)1, 2, 3, 9 Grozinger C.M.... Schreiber S.L. (Proc. Natl. Acad. Sci. U.S.A. 1999)
    2. Characterization of human colon cancer antigens recognized by autologous antibodies. (PubMed id 9610721)1, 2, 3 Scanlan M.J.... Old L.J. (Int. J. Cancer 1998)
    3. Protein kinase D-dependent phosphorylation and nuclear export of histone deacetylase 5 mediates vascular endothelial growth factor- induced gene expression and angiogenesis. (PubMed id 18332134)1, 2, 9 Ha C.H.... Jin Z.G. (J. Biol. Chem. 2008)
    4. AMP-activated protein kinase regulates GLUT4 transcription by phosphorylating histone deacetylase 5. (PubMed id 18184930)1, 2, 9 McGee S.L.... Hargreaves M. (Diabetes 2008)
    5. Signal-dependent nuclear export of a histone deacetylase regulates muscle differentiation. (PubMed id 11081517)1, 2, 9 McKinsey T.A.... Olson E.N. (Nature 2000)
    6. Chromosomal organization and localization of the human histone deacetylase 5 gene (HDAC5). (PubMed id 11018260)1, 2, 9 Mahlknecht U.... Hoelzer D. (Biochim. Biophys. Acta 2000)
    7. Human BAHD1 promotes heterochromatic gene silencing. (PubMed id 19666599)1, 2, 9 Bierne H.... Cossart P. (Proc. Natl. Acad. Sci. U.S.A. 2009)
    8. Protein kinase C-related kinase targets nuclear localization signals in a subset of class IIa histone deacetylases. (PubMed id 20188095)1, 2, 9 Harrison B.C....McKinsey T.A. (FEBS Lett. 2010)
    9. Twenty bone-mineral-density loci identified by large-scale meta-analysis of genome-wide association studies. (PubMed id 19801982)1, 4, 9 Rivadeneira F....Uitterlinden A.G. (Nat. Genet. 2009)
    10. 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)

    (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: 10014 HGNC: 14068 AceView: HDAC5 Ensembl:ENSG00000108840 euGenes: HUgn10014
    ECgene: HDAC5 Kegg: 10014 H-InvDB: HDAC5

    (According to HUGE)
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    HUGE: KIAA0600

    (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 HDAC5 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for HDAC5 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 HDAC5 gene:
    Search GeneIP for patents involving HDAC5

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



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