Description: Homo sapiens histone deacetylase 1 (HDAC1), mRNA. RefSeq Summary (NM_004964): Histone acetylation and deacetylation, catalyzed by multisubunit complexes, play a key role in the regulation of eukaryotic gene expression. The protein encoded by this gene belongs to the histone deacetylase/acuc/apha family and is a component of the histone deacetylase complex. It also interacts with retinoblastoma tumor-suppressor protein and this complex is a key element in the control of cell proliferation and differentiation. Together with metastasis-associated protein-2, it deacetylates p53 and modulates its effect on cell growth and apoptosis. [provided by RefSeq, Jul 2008]. Transcript (Including UTRs) Position: hg19 chr1:32,757,708-32,799,224 Size: 41,517 Total Exon Count: 14 Strand: + Coding Region Position: hg19 chr1:32,757,771-32,798,645 Size: 40,875 Coding Exon Count: 14
ID:HDAC1_HUMAN DESCRIPTION: RecName: Full=Histone deacetylase 1; Short=HD1; EC=3.5.1.98; 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. Deacetylates SP proteins, SP1 and SP3, and regulates their function. Component of the BRG1-RB1-HDAC1 complex, which negatively regulates the CREST- mediated transcription in resting neurons. Upon calcium stimulation, HDAC1 is released from the complex and CREBBP is recruited, which facilitates transcriptional activation. Deacetylates TSHZ3 and regulates its transcriptional repressor activity. Deacetylates 'Lys-310' in RELA and thereby inhibits the transcriptional activity of NF-kappa-B. Component 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. SUBUNIT: Interacts with C10orf90/FATS (via its N-terminal): the interaction prevents binding of HDAC1 to CDKN1A/p21 and facilitates the acetylation and stabilization of CDKN1A/p21. Interacts with CDKN1A/p21; the interaction is prevented by binding of C10orf90/FATS facilitating acetylation and stabilization of CDKN1A/p21. Component of a RCOR/GFI/KDM1A/HDAC complex. Interacts directly with GFI1 and GFI1B (By similarity). Part of the core histone deacetylase (HDAC) complex composed of HDAC1, HDAC2, RBBP4 and RBBP7. The core complex associates with MTA2, MBD2, 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 BHC histone deacetylase complex that contains HDAC1, HDAC2, HMG20B/BRAF35, KDM1A, RCOR1/CoREST and PHF21A/BHC80. The BHC complex may also contain ZMYM2, ZNF217, ZMYM3, GSE1 and GTF2I. Associates with the 9-1-1 complex; interacts with HUS1. Found in a complex with DNMT3A and HDAC7. Interacts with BAZ2A/TIP5, BCOR, BRMS1L, DAXX, DNMT1, EP300, HCFC1, NFE4, PCAF, PHB2, MIER1, KDM4A, MINT, NRIP1, PRDM6, RERE, SETDB1, SMYD2, SUV39H1, TGIF, TGIF2, UHRF1, UHRF2 and ZNF541. Interacts with the non-histone region of H2AFY. Interacts with HDAC9. Component of a mSin3A corepressor complex that contains SIN3A, SAP130, SUDS3/SAP45, ARID4B/SAP180, HDAC1 and HDAC2. Interacts with BANP, CBFA2T3 and KDM5B. Interacts with SAP30L. Interacts with E4F1. Interacts with KFL1 and SAMSN1 (By similarity). Interacts with SV40 large T antigen. Interacts with CHFR, PRDM16 and SMAD3. Interacts with SP1; the interaction deacetylates SP1 and regulates its transcriptional activity. Interacts with SP3; the interaction deacetylates SP3 and regulates its transcriptional activity. In vitro, C(18) ceramides increase this interaction and the subsequent SP3 deacetylation and SP3- mediated repression of the TERT promoter. Interacts with RB1 and SMARCA4/BRG1. Interacts with TRAF6. Interacts with TSHZ3 (via N- terminus); the interaction is direct. Found in a trimeric complex with APBB1 and TSHZ3; the interaction between HDAC1 and APBB1 is mediated by TSHZ3. Interacts with APEX1; the interaction is not dependent on the acetylated status of APEX1. Interacts with NR4A2/NURR1 and BRMS1. Interacts with TRIM28; the interaction recruits HDAC1 to E2F1 and inhibits its acetylation. Binds to CDK5 complexed to CDK5R1 (p25). Interacts with ZMYND15 (By similarity). Interacts with DDX5. Part of a complex composed of TRIM28, HDAC1, HDAC2 and EHMT2. Interacts with DDIT3/CHOP. INTERACTION: Q9HCU9:BRMS1; NbExp=3; IntAct=EBI-301834, EBI-714781; Q9UER7:DAXX; NbExp=2; IntAct=EBI-301834, EBI-77321; Q92841-4:DDX17; NbExp=3; IntAct=EBI-301834, EBI-5280703; P17844:DDX5; NbExp=4; IntAct=EBI-301834, EBI-351962; Q9UJW3:DNMT3L; NbExp=3; IntAct=EBI-301834, EBI-740967; Q96KQ7:EHMT2; NbExp=2; IntAct=EBI-301834, EBI-744366; Q8N140:EID3; NbExp=2; IntAct=EBI-301834, EBI-744483; Q99684:GFI1; NbExp=4; IntAct=EBI-301834, EBI-949368; P51610:HCFC1; NbExp=2; IntAct=EBI-301834, EBI-396176; Q92769:HDAC2; NbExp=5; IntAct=EBI-301834, EBI-301821; P43355:MAGEA1; NbExp=2; IntAct=EBI-301834, EBI-740978; Q9UIS9:MBD1; NbExp=2; IntAct=EBI-301834, EBI-867196; Q8N108:MIER1; NbExp=5; IntAct=EBI-301834, EBI-3504940; Q9Y618:NCOR2; NbExp=2; IntAct=EBI-301834, EBI-80830; P19838:NFKB1; NbExp=4; IntAct=EBI-301834, EBI-300010; Q9NQX1:PRDM5; NbExp=3; IntAct=EBI-301834, EBI-4292031; P06400:RB1; NbExp=2; IntAct=EBI-301834, EBI-491274; Q09028:RBBP4; NbExp=5; IntAct=EBI-301834, EBI-620823; Q16576:RBBP7; NbExp=3; IntAct=EBI-301834, EBI-352227; Q04206:RELA; NbExp=5; IntAct=EBI-301834, EBI-73886; O00422:SAP18; NbExp=2; IntAct=EBI-301834, EBI-1044156; O43463:SUV39H1; NbExp=3; IntAct=EBI-301834, EBI-349968; P04637:TP53; NbExp=3; IntAct=EBI-301834, EBI-366083; SUBCELLULAR LOCATION: Nucleus. TISSUE SPECIFICITY: Ubiquitous, with higher levels in heart, pancreas and testis, and lower levels in kidney and brain. PTM: Sumoylated on Lys-444 and Lys-476; which promotes enzymatic activity. Desumoylated by SENP1. PTM: Phosphorylation on Ser-421 and Ser-423 promotes enzymatic activity and interactions with NuRD and SIN3 complexes. Phosphorylated by CDK5. PTM: Ubiquitinated by CHFR, leading to its degradation by the proteasome (By similarity). Ubiquitinated by KCTD11, leading to proteasomal degradation. SIMILARITY: Belongs to the histone deacetylase family. HD type 1 subfamily.
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
ModBase Predicted Comparative 3D Structure on Q13547
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Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
AK225555 - Homo sapiens mRNA for histone deacetylase 1 variant, clone: KDN05801. AK296308 - Homo sapiens cDNA FLJ51981 complete cds, highly similar to Histone deacetylase 1. AK313061 - Homo sapiens cDNA, FLJ93538. D50405 - Homo sapiens mRNA for RPD3 protein, complete cds. E11455 - cDNA encoding human transcriptional control protein,RPDL. BC000301 - Homo sapiens histone deacetylase 1, mRNA (cDNA clone MGC:8378 IMAGE:2820260), complete cds. AK299792 - Homo sapiens cDNA FLJ60860 complete cds, highly similar to Histone deacetylase 1. U50079 - Human histone deacetylase HD1 mRNA, complete cds. AY627042 - Homo sapiens histone deacetylase 1 mRNA, complete cds. CU674144 - Synthetic construct Homo sapiens gateway clone IMAGE:100018338 5' read HDAC1 mRNA. AB451430 - Homo sapiens HDAC1 mRNA for histone deacetylase 1, partial cds, clone: FLJ08148AAAF. AB463736 - Synthetic construct DNA, clone: pF1KB7736, Homo sapiens HDAC1 gene for histone deacetylase 1, without stop codon, in Flexi system. AB451297 - Homo sapiens HDAC1 mRNA for histone deacetylase 1, complete cds, clone: FLJ08148AAAN. DQ891398 - Synthetic construct clone IMAGE:100004028; FLH176575.01X; RZPDo839E11122D histone deacetylase 1 (HDAC1) gene, encodes complete protein. DQ894577 - Synthetic construct Homo sapiens clone IMAGE:100009037; FLH176571.01L; RZPDo839E11121D histone deacetylase 1 (HDAC1) gene, encodes complete protein. KJ891340 - Synthetic construct Homo sapiens clone ccsbBroadEn_00734 HDAC1 gene, encodes complete protein. CR541717 - Homo sapiens full open reading frame cDNA clone RZPDo834A0629D for gene HDAC1, histone deacetylase 1; complete cds, incl. stopcodon. AK299241 - Homo sapiens cDNA FLJ51764 complete cds, highly similar to Histone deacetylase 1. BX648055 - Homo sapiens mRNA; cDNA DKFZp686H12203 (from clone DKFZp686H12203). JD193723 - Sequence 174747 from Patent EP1572962. JD126725 - Sequence 107749 from Patent EP1572962. JD210360 - Sequence 191384 from Patent EP1572962. JD391676 - Sequence 372700 from Patent EP1572962. JD444334 - Sequence 425358 from Patent EP1572962. JD339772 - Sequence 320796 from Patent EP1572962. JD116414 - Sequence 97438 from Patent EP1572962. JD384573 - Sequence 365597 from Patent EP1572962. JD296431 - Sequence 277455 from Patent EP1572962. JD254523 - Sequence 235547 from Patent EP1572962. JD168324 - Sequence 149348 from Patent EP1572962. JD188924 - Sequence 169948 from Patent EP1572962. LF838626 - JP 2016530232-A/21: Biomarkers of miR-34 Activity. JD323447 - Sequence 304471 from Patent EP1572962. JD537036 - Sequence 518060 from Patent EP1572962. JD411016 - Sequence 392040 from Patent EP1572962. JD315075 - Sequence 296099 from Patent EP1572962. JD358464 - Sequence 339488 from Patent EP1572962. JD156427 - Sequence 137451 from Patent EP1572962.
Biochemical and Signaling Pathways
KEGG - Kyoto Encyclopedia of Genes and Genomes hsa04110 - Cell cycle hsa04330 - Notch signaling pathway hsa05016 - Huntington's disease hsa05200 - Pathways in cancer hsa05220 - Chronic myeloid leukemia
BioCarta from NCI Cancer Genome Anatomy Project h_wntPathway - WNT Signaling Pathway h_mta3Pathway - Downregulated of MTA-3 in ER-negative Breast Tumors h_ranbp2Pathway - Sumoylation by RanBP2 Regulates Transcriptional Repression h_prc2Pathway - The PRC2 Complex Sets Long-term Gene Silencing Through Modification of Histone Tails h_g1Pathway - Cell Cycle: G1/S Check Point h_pitx2Pathway - Multi-step Regulation of Transcription by Pitx2 h_carm-erPathway - CARM1 and Regulation of the Estrogen Receptor h_HuntingtonPathway - Inhibition of Huntington's disease neurodegeneration by histone deacetylase inhibitors h_vdrPathway - Control of Gene Expression by Vitamin D Receptor h_mef2dPathway - Role of MEF2D in T-cell Apoptosis h_tertpathway - Overview of telomerase protein component gene hTert Transcriptional Regulation
Reactome (by CSHL, EBI, and GO)
Protein Q13547 (Reactome details) participates in the following event(s):
R-HSA-427409 Nucleolar Remodelling Complex (NoRC) binds intergenic region of rDNA R-HSA-1227670 Recruitment of HDAC1 by p130 (RBL2) R-HSA-1227671 Recruitment of HDAC1 by p107 (RBL1) R-HSA-2186607 TGIF recruits HDAC1 to SMAD2/3:SMAD4 heterotrimer R-NUL-3299567 xTLE4 binds HDAC1 R-HSA-4615889 SUMOylation of HDAC1 with SUMO1 R-HSA-4641231 TLE recruits HDAC1 to WNT promoters R-HSA-8935732 RUNX1 binds SIN3A,(SIN3B) co-repressor R-HSA-3299569 Beta-catenin displaces TLE:HDAC1 from TCF/LEF R-HSA-9009065 FOXA1 and GATA3 bind to CCND1 promoter R-HSA-8935730 RUNX1:CBFB, SIN3A(SIN3B), PRMT6 and HDAC1 bind the ITGA2B promoter R-HSA-8936599 RUNX1:CBFB, SIN3A(SIN3B), PRMT6 and HDAC1 bind the GP1BA promoter R-HSA-8936989 RUNX1:CBFB, SIN3A(SIN3B), PRMT6 and HDAC1 bind the THBS1 gene promoter R-HSA-8937118 RUNX1:CBFB, SIN3A(SIN3B), PRMT6 and HDAC1 bind the MIR27A gene promoter R-HSA-205056 PRDM4 inhibits cyclin E transcription R-HSA-5227490 NoRC:HDAC:DNMT methylates cytosine of the rRNA genes R-HSA-8964550 The complex of HDAC1, RBL1 and E2F4 or HDAC1, RBL2, E2F4 or E2F5 binds E2F1 gene promoter R-HSA-8964561 The complex of HDAC1, RBL1 and E2F4 or HDAC1, RBL2, E2F4 or E2F5 binds MYBL2 gene promoter R-HSA-8964567 The complex of HDAC1, RBL1 and E2F4 or HDAC1, RBL2, E2F4 or E2F5 binds CDK1 gene promoter R-HSA-8964580 The complex of HDAC1, RBL1 and E2F4 or HDAC1, RBL2, E2F4 or E2F5 binds CCNA2 gene promoter R-HSA-996727 REST recruits the BHC complex R-HSA-427404 Recruitment of ERCC6 (CSB), EHMT2 (G9a), and NuRD to the promoter of rRNA gene R-HSA-8943780 SALL4 recruits NuRD to PTEN gene R-HSA-8936584 PRMT6 arginine methylates H3K4me2-Nucleosome at the ITGA2B gene promoter R-HSA-8936608 PRMT6 arginine methylates H3K4me2-Nucleosome at the GP1BA gene promoter R-HSA-8937022 PRMT6 arginine methylates H3K4me2-Nucleosome at the THBS1 gene promoter R-HSA-8937113 PRMT6 arginine methylates H3K4me2-Nucleosome at the MIR27A gene promoter R-HSA-1912388 NICD1 displaces co-repressor complex from RBPJ (CSL) R-HSA-2220982 NICD1 PEST domain mutants displace co-repressor complex from RBPJ (CSL) R-HSA-6805650 MTA2-NuRD complex deacetylates TP53 R-HSA-3769447 HDAC1/2 containing-complexes deacetylate histones R-HSA-6807077 NR2E1 associated with transcription repressors binds PTEN promoter R-HSA-427336 TTF1:rRNA promoter:ERCC6:EHMT2 complex dimethylates histone H3 at lysine-9. R-HSA-427413 NoRC negatively regulates rRNA expression R-HSA-1538133 G0 and Early G1 R-HSA-2173795 Downregulation of SMAD2/3:SMAD4 transcriptional activity R-HSA-4551638 SUMOylation of chromatin organization proteins R-HSA-4641265 Repression of WNT target genes R-HSA-8936459 RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function R-HSA-201722 Formation of the beta-catenin:TCF transactivating complex R-HSA-9018519 Estrogen-dependent gene expression R-HSA-3769402 Deactivation of the beta-catenin transactivating complex R-HSA-193670 p75NTR negatively regulates cell cycle via SC1 R-HSA-5250941 Negative epigenetic regulation of rRNA expression R-HSA-453279 Mitotic G1-G1/S phases R-HSA-2173793 Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer R-HSA-3108232 SUMO E3 ligases SUMOylate target proteins R-HSA-195253 Degradation of beta-catenin by the destruction complex R-HSA-8878171 Transcriptional regulation by RUNX1 R-HSA-201681 TCF dependent signaling in response to WNT R-HSA-8939211 ESR-mediated signaling R-HSA-1362300 Transcription of E2F targets under negative control by p107 (RBL1) and p130 (RBL2) in complex with HDAC1 R-HSA-983231 Factors involved in megakaryocyte development and platelet production R-HSA-427389 ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression R-HSA-8943724 Regulation of PTEN gene transcription R-HSA-193704 p75 NTR receptor-mediated signalling R-HSA-2122947 NOTCH1 Intracellular Domain Regulates Transcription R-HSA-2644606 Constitutive Signaling by NOTCH1 PEST Domain Mutants R-HSA-2894862 Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants R-HSA-212165 Epigenetic regulation of gene expression R-HSA-69278 Cell Cycle (Mitotic) R-HSA-170834 Signaling by TGF-beta Receptor Complex R-HSA-212436 Generic Transcription Pathway R-HSA-2990846 SUMOylation R-HSA-195721 Signaling by WNT R-HSA-9006931 Signaling by Nuclear Receptors R-HSA-109582 Hemostasis R-HSA-5250913 Positive epigenetic regulation of rRNA expression R-HSA-6807070 PTEN Regulation R-HSA-6804758 Regulation of TP53 Activity through Acetylation R-HSA-73887 Death Receptor Signalling R-HSA-1980143 Signaling by NOTCH1 R-HSA-2644602 Signaling by NOTCH1 PEST Domain Mutants in Cancer R-HSA-2894858 Signaling by NOTCH1 HD+PEST Domain Mutants in Cancer R-HSA-74160 Gene expression (Transcription) R-HSA-1640170 Cell Cycle R-HSA-9006936 Signaling by TGF-beta family members R-HSA-73857 RNA Polymerase II Transcription R-HSA-597592 Post-translational protein modification R-HSA-162582 Signal Transduction R-HSA-3214815 HDACs deacetylate histones R-HSA-1257604 PIP3 activates AKT signaling R-HSA-5633007 Regulation of TP53 Activity R-HSA-157118 Signaling by NOTCH R-HSA-2644603 Signaling by NOTCH1 in Cancer R-HSA-392499 Metabolism of proteins R-HSA-3247509 Chromatin modifying enzymes R-HSA-9006925 Intracellular signaling by second messengers R-HSA-3700989 Transcriptional Regulation by TP53 R-HSA-5663202 Diseases of signal transduction R-HSA-4839726 Chromatin organization R-HSA-1643685 Disease
US Server
Sequence and Links to Tools and Databases 
Common Gene Haplotype Alleles 
