HDAC1 histone deacetylase 1 [ Homo sapiens (human) ]

Gene ID: 3065, updated on 16-Mar-2019

Summary

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Official Symbol: HDAC1provided by HGNC
Official Full Name: histone deacetylase 1provided by HGNC
Primary source: HGNC:HGNC:4852
See related: Ensembl:ENSG00000116478 MIM:601241
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: HD1; RPD3; KDAC1; GON-10; RPD3L1
Summary: 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]
Expression: Ubiquitous expression in lymph node (RPKM 56.9), colon (RPKM 56.3) and 25 other tissues See more
Orthologs: mouse all

Genomic context

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See HDAC1 in Genome Data Viewer

Location:: 1p35.2-p35.1

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
109	current	GRCh38.p12 (GCF_000001405.38)	1	NC_000001.11 (32292103..32333628)
105	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (32757708..32799227)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

The HDAC1 confers immune-resistance, drug-resistance and stem-like phenotype in tumor cells through its catalytic activity.
Title: Stabilization of HDAC1 via TCL1-pAKT-CHFR axis is a key element for NANOG-mediated multi-resistance and stem-like phenotype in immune-edited tumor cells.
Leishmania amazonensis induces HDAC1 in infected macrophages, which contribute to parasite survival and is associated to hiporeactive stage found in Leishmania amazonensis infected patients.
Title: Leishmania amazonensis downregulates macrophage iNOS expression via Histone Deacetylase 1 (HDAC1): a novel parasite evasion mechanism.
recruited to centromeres by RSF1
Title: The chromatin remodeler RSF1 controls centromeric histone modifications to coordinate chromosome segregation.
HDAC1,2 inhibitor either alone or when combined with doxorubicin decreases leukemia burden.
Title: HDAC1,2 inhibition and doxorubicin impair Mre11-dependent DNA repair and DISC to override BCR-ABL1-driven DSB repair in Philadelphia chromosome-positive B-cell precursor acute lymphoblastic leukemia.
miR-34a exhibited suppressive effects on ovarian cancer (OC) cells via directly binding and downregulating HDAC1 expression, which subsequently decreased the resistance to cisplatin and suppressed proliferation in OC cells.
Title: miRNA-34a decreases ovarian cancer cell proliferation and chemoresistance by targeting HDAC1.
Study identified HDAC1, a key regulator of eukaryotic gene expression and many important cellular events, including cell proliferation, differentiation, cancer and immunity, as an interacting partner of ABIN1.
Title: ABIN1 inhibits HDAC1 ubiquitination and protects it from both proteasome- and lysozyme-dependent degradation.
r meta-analysis demonstrated an association between increased HDAC1 expression and better OS in Asian breast cancer patients
Title: Prognostic and clinical significance of histone deacetylase 1 expression in breast cancer: A meta-analysis.
Daxx directly binds to the DNA-binding domain of Slug, impeding histone deacetylase 1 (HDAC1) recruitment and antagonizing Slug E-box binding. This, in turn, stimulates E-cadherin and occludin expression and suppresses Slug-mediated epithelial-mesenchymal transition (EMT) and cell invasiveness.
Title: Daxx inhibits hypoxia-induced lung cancer cell metastasis by suppressing the HIF-1α/HDAC1/Slug axis.
the knockdown of HDAC1/2 upregulated KLF5 protein but not KLF5 mRNA, and the increase in KLF5 protein level by silencing HDAC1/2 was at least in part due to decreased proteasomal degradation.
Title: HDAC-mediated deacetylation of KLF5 associates with its proteasomal degradation.
HDAC1 knockdown by siRNA suppressed cell proliferation, and increased apoptosis and chemosensitivity by downregulating c-Myc and upregulating miR-34a.
Title: HDAC1 Silencing in Ovarian Cancer Enhances the Chemotherapy Response.

Submit: New GeneRIF Correction See all GeneRIFs (323)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
Knockdown of histone deacetylase 1 (HDAC1) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1	PubMed

Protein interactions

Protein	Gene	Interaction	Pubs
Tat	tat	YY1 and LSF transcription factors cooperatively recruit histone deacetylase 1 (HDAC1) to the HIV-1 LTR promoter, thereby inhibiting transcription and Tat activation of the promoter	PubMed
	tat	A compound in curry known as Curcumin inhibits HIV-1 Tat-mediated long terminal repeat transactivation by reversing Tat-induced dissociation of HDAC1 from LTR and by reducing the binding of p65/NFKappaB to LTR	PubMed
	tat	The SIN3/HDAC complex, composed of SIN3A, SAP30, SAP18, HDAC-1 AND -2 and RbAp46/48 except SAP30, are identified to interact with HIV-1 Tat in Jurkat cell	PubMed
Vpr	vpr	HIV-1 Vpr depletes HDAC1 in HIV-1 latently infected J-Lat cells by targeting HDAC1 for proteasomal degradation; HDAC1 was degraded on HIV-1 LTR resulting in recruitment of active transcription marks to the viral promoter and provirus activation	PubMed
	vpr	HIV-1 Vpr binds and depletes chromatin-associated HDAC3 and HDAC1 through a VprBP-dependent mechanism resulting in hyperacetylation of histones on the HIV-1 LTR resulting in reactivation of HIV-1 promoter leading to acute infection	PubMed
	vpr	HIV-1 Vpr depletes HDAC1, 2, 3 and 8 to overcome HIV-1 proviral latency in macrophages	PubMed
	vpr	COUP-TF-interacting protein 2 (CTIP2) abolishes Vpr-mediated stimulation of p21 by cooperating with SUV39H1 and HDAC1/HDAC2 to silence the p21 gene transcription	PubMed
integrase	gag-pol	KAP1 inhibits HIV-1 integration via HIV-1 IN acetylation-dependent mechanism by inducing IN/HDAC1 complex formation	PubMed
	gag-pol	HIV-1 IN and INI1/hSNF5 bind SAP18 and selectively recruit components of Sin3a-HDAC1 complex into HIV-1 virions. HIV-1 virion-associated HDAC1 is required for efficient early post-entry events	PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

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Alcoholism, organism-specific biosystem (from KEGG)
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Amphetamine addiction, conserved biosystem (from KEGG)
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Androgen receptor signaling pathway, organism-specific biosystem (from WikiPathways)
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Apoptosis-related network due to altered Notch3 in ovarian cancer, organism-specific biosystem (from WikiPathways)
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Cell Cycle, organism-specific biosystem (from WikiPathways)
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Cell Cycle, organism-specific biosystem (from REACTOME)
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Cell Cycle, Mitotic, organism-specific biosystem (from REACTOME)
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Cell cycle, organism-specific biosystem (from KEGG)
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Cell cycle, conserved biosystem (from KEGG)
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Chromatin modifying enzymes, organism-specific biosystem (from REACTOME)
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Chromatin organization, organism-specific biosystem (from REACTOME)
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Chronic myeloid leukemia, organism-specific biosystem (from KEGG)
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Chronic myeloid leukemia, conserved biosystem (from KEGG)
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Circadian rythm related genes, organism-specific biosystem (from WikiPathways)
Circadian rythm related genes, organism-specific biosystemThis is currently not a pathway but a list of circadian rhythm related genes and proteins. The source for this information is the gene ontology. The genes and proteins were filtered for "circadian rh...
Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants, organism-specific biosystem (from REACTOME)
Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants, organism-specific biosystemWhen found in cis, HD and PEST domain mutations act synergistically, increasing NOTCH1 transcriptional activity up to ~40-fold, compared with up to ~10-fold and up to ~2-fold increase with HD mutatio...
Constitutive Signaling by NOTCH1 PEST Domain Mutants, organism-specific biosystem (from REACTOME)
Constitutive Signaling by NOTCH1 PEST Domain Mutants, organism-specific biosystemAs NOTCH1 PEST domain is intracellular, NOTCH1 PEST domain mutants are expected to behave as the wild-type NOTCH1 with respect to ligand binding and proteolytic cleavage mediated activation of signal...
Deactivation of the beta-catenin transactivating complex, organism-specific biosystem (from REACTOME)
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Degradation of beta-catenin by the destruction complex, organism-specific biosystem (from REACTOME)
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Disease, organism-specific biosystem (from REACTOME)
Disease, organism-specific biosystemBiological processes are captured in Reactome by identifying the molecules (DNA, RNA, protein, small molecules) involved in them and describing the details of their interactions. From this molecular ...
Diseases of signal transduction, organism-specific biosystem (from REACTOME)
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Downregulation of SMAD2/3:SMAD4 transcriptional activity, organism-specific biosystem (from REACTOME)
Downregulation of SMAD2/3:SMAD4 transcriptional activity, organism-specific biosystemTranscriptional activity of SMAD2/3:SMAD4 heterotrimer can be inhibited by formation of a complex with SKI or SKIL (SNO), where SKI or SKIL recruit NCOR and possibly other transcriptional repressors ...
E2F transcription factor network, organism-specific biosystem (from Pathway Interaction Database)
E2F transcription factor network, organism-specific biosystem
E2F transcription factor network
ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression, organism-specific biosystem (from REACTOME)
ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression, organism-specific biosystemAbout half of the rRNA genes in the genome are actively expressed, being transcribed by RNA polymerase I (reviewed in Nemeth and Langst 2008, Bartova et al. 2010, Goodfellow and Zomerdijk 2012, Grumm...
Epigenetic regulation of gene expression, organism-specific biosystem (from REACTOME)
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Epstein-Barr virus infection, organism-specific biosystem (from KEGG)
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Epstein-Barr virus infection, conserved biosystem (from KEGG)
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Factors involved in megakaryocyte development and platelet production, organism-specific biosystem (from REACTOME)
Factors involved in megakaryocyte development and platelet production, organism-specific biosystemMegakaryocytes (MKs) give rise to circulating platelets (thrombocytes) through terminal differentiation of MKs which release cytoplasmic fragments as circulating platelets. As MKs mature they underg...
Formation of the beta-catenin:TCF transactivating complex, organism-specific biosystem (from REACTOME)
Formation of the beta-catenin:TCF transactivating complex, organism-specific biosystemOnce in the nucleus, beta-catenin is recruited to WNT target genes through interaction with TCF/LEF transcription factors. This family, which consists of TCF7 (also known as TCF1), TCF7L1 (also known...
G0 and Early G1, organism-specific biosystem (from REACTOME)
G0 and Early G1, organism-specific biosystemIn G0 and early G1 in quiescent cells, p130 (RBL2) bound to E2F4 or E2F5 and either DP1 or DP2, associates with the MuvB complex, forming an evolutionarily conserved DREAM complex, that represses tra...
Gene Expression, organism-specific biosystem (from REACTOME)
Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
Generic Transcription Pathway, organism-specific biosystem (from REACTOME)
Generic Transcription Pathway, organism-specific biosystemOVERVIEW OF TRANSCRIPTION REGULATION: Detailed studies of gene transcription regulation in a wide variety of eukaryotic systems has revealed the general principles and mechanisms by which cell- or t...
Glucocorticoid receptor regulatory network, organism-specific biosystem (from Pathway Interaction Database)
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Glucocorticoid receptor regulatory network
HDACs deacetylate histones, organism-specific biosystem (from REACTOME)
HDACs deacetylate histones, organism-specific biosystemLysine deacetylases (KDACs), historically referred to as histone deacetylases (HDACs), are divided into the Rpd3/Hda1 metal-dependent 'classical HDAC family' (de Ruijter et al. 2003, Verdin et al. 2...
Hedgehog signaling events mediated by Gli proteins, organism-specific biosystem (from Pathway Interaction Database)
Hedgehog signaling events mediated by Gli proteins, organism-specific biosystem
Hedgehog signaling events mediated by Gli proteins
Hemostasis, organism-specific biosystem (from REACTOME)
Hemostasis, organism-specific biosystemHemostasis is a physiological response that culminates in the arrest of bleeding from an injured vessel. Under normal conditions the vascular endothelium supports vasodilation, inhibits platelet adhe...
Huntington's disease, organism-specific biosystem (from KEGG)
Huntington's disease, organism-specific biosystemHuntington disease (HD) is an autosomal-dominant neurodegenerative disorder that primarily affects medium spiny striatal neurons (MSN). The symptoms are choreiform, involuntary movements, personality...
Huntington's disease, conserved biosystem (from KEGG)
Huntington's disease, conserved biosystemHuntington disease (HD) is an autosomal-dominant neurodegenerative disorder that primarily affects medium spiny striatal neurons (MSN). The symptoms are choreiform, involuntary movements, personality...
IL-6 signaling pathway, organism-specific biosystem (from WikiPathways)
IL-6 signaling pathway, organism-specific biosystemIL-6 is a pleiotropic cytokine with important role in immune regulation, hematopoiesis, inflammation and oncogenesis. IL-6-type cytokines exert their action via the signal transducer gp130 that assoc...
Initiation of transcription and translation elongation at the HIV-1 LTR, organism-specific biosystem (from WikiPathways)
Initiation of transcription and translation elongation at the HIV-1 LTR, organism-specific biosystemFollowing cellular activation or drug treatment, NFAT and NF-kB translocate to the nucleus and bind sites at the HIV-1 LTR. NFAT and NF-kB recruit p300/CBP to the LTR, resulting in acetylation of his...
Integrated Breast Cancer Pathway, organism-specific biosystem (from WikiPathways)
Integrated Breast Cancer Pathway, organism-specific biosystemThis pathway incorporates the most important proteins for Breast Cancer. The Rp score from the Connectivity-Maps (C-Maps) webserver was used to determine the rank of the most important proteins in Br...
Longevity regulating pathway - multiple species, organism-specific biosystem (from KEGG)
Longevity regulating pathway - multiple species, organism-specific biosystemAging is a complex process of accumulation of molecular, cellular, and organ damage, leading to loss of function and increased vulnerability to disease and death. Despite the complexity of aging, rec...
Longevity regulating pathway - multiple species, conserved biosystem (from KEGG)
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MECP2 and Associated Rett Syndrome, organism-specific biosystem (from WikiPathways)
MECP2 and Associated Rett Syndrome, organism-specific biosystemMecp2 is in many mammals an important regulator of neuronal function and development. It affects all cell types, especially neurons but also astrocytes, oligodendrocytes, and glial cells. Mecp2 plays...
MicroRNAs in cancer, organism-specific biosystem (from KEGG)
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MicroRNAs in cancer, conserved biosystem (from KEGG)
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Mitotic G1-G1/S phases, organism-specific biosystem (from REACTOME)
Mitotic G1-G1/S phases, organism-specific biosystem
Mitotic G1-G1/S phases
NOTCH1 Intracellular Domain Regulates Transcription, organism-specific biosystem (from REACTOME)
NOTCH1 Intracellular Domain Regulates Transcription, organism-specific biosystemNICD1 produced by activation of NOTCH1 in response to Delta and Jagged ligands (DLL/JAG) presented in trans, traffics to the nucleus where it acts as a transcription regulator. In the nucleus, NICD1 ...
Negative epigenetic regulation of rRNA expression, organism-specific biosystem (from REACTOME)
Negative epigenetic regulation of rRNA expression, organism-specific biosystemTranscription of rRNA genes is controlled by epigenetic activation and repression (reviewed in McStay and Grummt 2008, Goodfellow and Zomerdijk 2012, Grummt and Langst 2013). About half of the roughl...
Neural Crest Differentiation, organism-specific biosystem (from WikiPathways)
Neural Crest Differentiation, organism-specific biosystemGene regulatory network model of cranial neural crest cell (CNCC) development, adaped from PMID: 19575671. Most interactions in the model are proposed to regulate transcription of core factors involv...
NoRC negatively regulates rRNA expression, organism-specific biosystem (from REACTOME)
NoRC negatively regulates rRNA expression, organism-specific biosystemOnly about half of the rRNA gene copies in a cell are expressed. The remaining copies are silenced by modifications to histones and DNA (reviewed in Santoro and Grummt 2001, Grummt 2007, Preuss and P...
Notch Signaling Pathway, organism-specific biosystem (from WikiPathways)
Notch Signaling Pathway, organism-specific biosystemThe Notch signaling pathway is an evolutionarily conserved, intercellular signaling mechanism essential for proper embryonic development in all metazoan organisms in the Animal kingdom. The Notch pro...
Notch Signaling Pathway, organism-specific biosystem (from WikiPathways)
Notch Signaling Pathway, organism-specific biosystemThe Notch pathway is an evolutionally conserved signaling pathway which plays an important role in diverse developmental and physiological processes. These include cell-fate determination, tissue pat...
Notch signaling pathway, organism-specific biosystem (from KEGG)
Notch signaling pathway, organism-specific biosystemThe Notch signaling pathway is an evolutionarily conserved, intercellular signaling mechanism essential for proper embryonic development in all metazoan organisms in the Animal kingdom. The Notch pro...
Notch signaling pathway, organism-specific biosystem (from Pathway Interaction Database)
Notch signaling pathway, organism-specific biosystem
Notch signaling pathway
Notch signaling pathway, conserved biosystem (from KEGG)
Notch signaling pathway, conserved biosystemThe Notch signaling pathway is an evolutionarily conserved, intercellular signaling mechanism essential for proper embryonic development in all metazoan organisms in the Animal kingdom. The Notch pro...
Notch-mediated HES/HEY network, organism-specific biosystem (from Pathway Interaction Database)
Notch-mediated HES/HEY network, organism-specific biosystem
Notch-mediated HES/HEY network
Pathways in cancer, organism-specific biosystem (from KEGG)
Pathways in cancer, organism-specific biosystem
Pathways in cancer
Positive epigenetic regulation of rRNA expression, organism-specific biosystem (from REACTOME)
Positive epigenetic regulation of rRNA expression, organism-specific biosystemTranscription of rRNA genes is controlled by epigenetic activation and repression (reviewed in Percipalle and Farrants 2006, McStay and Grummt 2008, Goodfellow and Zomerdijk 2012, Grummt and Langst 2...
Presenilin action in Notch and Wnt signaling, organism-specific biosystem (from Pathway Interaction Database)
Presenilin action in Notch and Wnt signaling, organism-specific biosystem
Presenilin action in Notch and Wnt signaling
RNA Polymerase I Promoter Clearance, organism-specific biosystem (from REACTOME)
RNA Polymerase I Promoter Clearance, organism-specific biosystemPromoter clearance is one of the rate-limiting steps in Polymerase I transcription. This step is composed of three phases, promoter opening, transcription initiation and promoter escape.
RNA Polymerase I Transcription, organism-specific biosystem (from REACTOME)
RNA Polymerase I Transcription, organism-specific biosystemThe rRNA genes are transcribed by RNA polymerase I, one of three eukaryotic nuclear RNA polymerases. The polymerase is a multisubunit complex, composed of two large subunits (the most conserved porti...
RNA Polymerase I Transcription Initiation, organism-specific biosystem (from REACTOME)
RNA Polymerase I Transcription Initiation, organism-specific biosystemDuring initiation the double-stranded DNA must be melted and transcription begins. SL1 forms and interacts with UBF-1 and the rDNA promoter. It is this platform that will recruit active RNA polymeras...
RNA Polymerase I, RNA Polymerase III, and Mitochondrial Transcription, organism-specific biosystem (from REACTOME)
RNA Polymerase I, RNA Polymerase III, and Mitochondrial Transcription, organism-specific biosystemTranscription by RNA Polymerase I, RNA Polymerase III and transcription from mitochondrial promoters.
Regulation of Androgen receptor activity, organism-specific biosystem (from Pathway Interaction Database)
Regulation of Androgen receptor activity, organism-specific biosystem
Regulation of Androgen receptor activity
Regulation of TP53 Activity, organism-specific biosystem (from REACTOME)
Regulation of TP53 Activity, organism-specific biosystemProtein stability and transcriptional activity of TP53 (p53) tumor suppressor are regulated by post-translational modifications that include ubiquitination, phosphorylation, acetylation, methylation,...
Regulation of TP53 Activity through Acetylation, organism-specific biosystem (from REACTOME)
Regulation of TP53 Activity through Acetylation, organism-specific biosystemTranscriptional activity of TP53 is positively regulated by acetylation of several of its lysine residues. BRD7 binds TP53 and promotes acetylation of TP53 lysine residue K382 by acetyltransferase EP...
Regulation of Telomerase, organism-specific biosystem (from Pathway Interaction Database)
Regulation of Telomerase, organism-specific biosystem
Regulation of Telomerase
Regulation of Wnt-mediated beta catenin signaling and target gene transcription, organism-specific biosystem (from Pathway Interaction Database)
Regulation of Wnt-mediated beta catenin signaling and target gene transcription, organism-specific biosystem
Regulation of Wnt-mediated beta catenin signaling and target gene transcription
Regulation of nuclear SMAD2/3 signaling, organism-specific biosystem (from Pathway Interaction Database)
Regulation of nuclear SMAD2/3 signaling, organism-specific biosystem
Regulation of nuclear SMAD2/3 signaling
Regulation of retinoblastoma protein, organism-specific biosystem (from Pathway Interaction Database)
Regulation of retinoblastoma protein, organism-specific biosystem
Regulation of retinoblastoma protein
Repression of WNT target genes, organism-specific biosystem (from REACTOME)
Repression of WNT target genes, organism-specific biosystemIn the absence of a WNT signal, many WNT target genes are repressed by Groucho/TLE. Groucho was initially identified in Drosophila, where it has been shown to interact with a variety of proteins to ...
Retinoblastoma (RB) in Cancer, organism-specific biosystem (from WikiPathways)
Retinoblastoma (RB) in Cancer, organism-specific biosystemDescribes the role of retinoblastoma (RB) gene in cancer.
Retinoic acid receptors-mediated signaling, organism-specific biosystem (from Pathway Interaction Database)
Retinoic acid receptors-mediated signaling, organism-specific biosystem
Retinoic acid receptors-mediated signaling
SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription, organism-specific biosystem (from REACTOME)
SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription, organism-specific biosystemAfter phosphorylated SMAD2 and/or SMAD3 form a heterotrimer with SMAD4, SMAD2/3:SMAD4 complex translocates to the nucleus (Xu et al. 2000, Kurisaki et al. 2001, Xiao et al. 2003). In the nucleus, lin...
Signal Transduction, organism-specific biosystem (from REACTOME)
Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
Signaling by NOTCH, organism-specific biosystem (from REACTOME)
Signaling by NOTCH, organism-specific biosystemThe Notch Signaling Pathway (NSP) is a highly conserved pathway for cell-cell communication. NSP is involved in the regulation of cellular differentiation, proliferation, and specification. For exam...
Signaling by NOTCH1, organism-specific biosystem (from REACTOME)
Signaling by NOTCH1, organism-specific biosystemNOTCH1 functions as both a transmembrane receptor presented on the cell surface and as a transcriptional regulator in the nucleus.NOTCH1 receptor presented on the plasma membrane is activated by a me...
Signaling by NOTCH1 HD+PEST Domain Mutants in Cancer, organism-specific biosystem (from REACTOME)
Signaling by NOTCH1 HD+PEST Domain Mutants in Cancer, organism-specific biosystemMutations in the heterodimerization domain (HD) and PEST domain of NOTCH1 are frequently found in cis in T-cell acute lymphoblastic leukemia. While HD mutations alone result in up to ~10-fold increas...
Signaling by NOTCH1 PEST Domain Mutants in Cancer, organism-specific biosystem (from REACTOME)
Signaling by NOTCH1 PEST Domain Mutants in Cancer, organism-specific biosystemNOTCH1 PEST domain mutations are frequently found in T-cell acute lymphoblastic leukemia (T-ALL). PEST domain mutations interfere with ubiquitination-mediated NOTCH1 downregulation and result in prol...
Signaling by NOTCH1 in Cancer, organism-specific biosystem (from REACTOME)
Signaling by NOTCH1 in Cancer, organism-specific biosystemHuman NOTCH1 was cloned as a chromosome 9 gene, translocated to the T-cell beta receptor (TCBR) promoter on chromosome 7 in T-cell acute lymphoblastic leukemia (T-ALL) (Ellisen et al. 1991). This tra...
Signaling by TGF-beta Receptor Complex, organism-specific biosystem (from REACTOME)
Signaling by TGF-beta Receptor Complex, organism-specific biosystemThe TGF-beta/BMP pathway incorporates several signaling pathways that share most, but not all, components of a central signal transduction engine. The general signaling scheme is rather simple: upon ...
Signaling by Wnt, organism-specific biosystem (from REACTOME)
Signaling by Wnt, organism-specific biosystemWNT signaling pathways control a wide range of developmental and adult process in metozoans including cell proliferation, cell fate decisions, cell polarity and stem cell maintenance (reviewed in Sai...
Signaling events mediated by HDAC Class I, organism-specific biosystem (from Pathway Interaction Database)
Signaling events mediated by HDAC Class I, organism-specific biosystem
Signaling events mediated by HDAC Class I
Signalling by NGF, organism-specific biosystem (from REACTOME)
Signalling by NGF, organism-specific biosystemNeurotrophins (NGF, BDNF, NT-3, NT-4/5) play pivotal roles in survival, differentiation, and plasticity of neurons in the peripheral and central nervous system. They are produced, and secreted in mi...
Sudden Infant Death Syndrome (SIDS) Susceptibility Pathways, organism-specific biosystem (from WikiPathways)
Sudden Infant Death Syndrome (SIDS) Susceptibility Pathways, organism-specific biosystemIn this model, we provide an integrated view of Sudden Infant Death Syndrome (SIDS) at the level of implicated tissues, signaling networks and genetics. The purpose of this model is to serve as an ov...
Sumoylation by RanBP2 regulates transcriptional repression, organism-specific biosystem (from Pathway Interaction Database)
Sumoylation by RanBP2 regulates transcriptional repression, organism-specific biosystem
Sumoylation by RanBP2 regulates transcriptional repression
TCF dependent signaling in response to WNT, organism-specific biosystem (from REACTOME)
TCF dependent signaling in response to WNT, organism-specific biosystem19 WNT ligands and 10 FZD receptors have been identified in human cells; interactions amongst these ligands and receptors vary in a developmental and tissue-specific manner and lead to activation of ...
TGF-beta Signaling Pathway, organism-specific biosystem (from WikiPathways)
TGF-beta Signaling Pathway, organism-specific biosystemThe signal transduction mechanisms underlying the pathophysiological activities of transforming growth factor-? (TGF-?) have been extensively studied since its discovery nearly 30 years ago. TGF-? li...
TNF related weak inducer of apoptosis (TWEAK) Signaling Pathway, organism-specific biosystem (from WikiPathways)
TNF related weak inducer of apoptosis (TWEAK) Signaling Pathway, organism-specific biosystemTNF related weak inducer of apoptosis (TWEAK) is a small pleiotropic cytokine of the TNF super family and its gene is located at chromosome 17p13.1. TWEAK has been reported to be expressed in tissues...
Thyroid hormone signaling pathway, organism-specific biosystem (from KEGG)
Thyroid hormone signaling pathway, organism-specific biosystemThe thyroid hormones (THs) are important regulators of growth, development and metabolism. The action of TH is mainly mediated by T3 (3,5,3'-triiodo-L-thyronine). Thyroid hormones, L-thyroxine (T4) a...
Transcriptional Regulation by TP53, organism-specific biosystem (from REACTOME)
Transcriptional Regulation by TP53, organism-specific biosystemThe tumor suppressor TP53 (encoded by the gene p53) is a transcription factor. Under stress conditions, it recognizes specific responsive DNA elements and thus regulates the transcription of many gen...
Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer, organism-specific biosystem (from REACTOME)
Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer, organism-specific biosystemIn the nucleus, SMAD2/3:SMAD4 heterotrimer complex acts as a transcriptional regulator. The activity of SMAD2/3 complex is regulated both positively and negatively by association with other transcrip...
Transcriptional misregulation in cancer, organism-specific biosystem (from KEGG)
Transcriptional misregulation in cancer, organism-specific biosystem
Transcriptional misregulation in cancer
Transcriptional misregulation in cancer, conserved biosystem (from KEGG)
Transcriptional misregulation in cancer, conserved biosystem
Transcriptional misregulation in cancer
Validated targets of C-MYC transcriptional repression, organism-specific biosystem (from Pathway Interaction Database)
Validated targets of C-MYC transcriptional repression, organism-specific biosystem
Validated targets of C-MYC transcriptional repression
Valproic acid pathway, organism-specific biosystem (from WikiPathways)
Valproic acid pathway, organism-specific biosystemValproic acid is a drug used for treatment and management of seizure disorders, mania and prophylactic treatment of migraine headache. In epileptics, valproic acid is used to control absence seizures...
Viral carcinogenesis, organism-specific biosystem (from KEGG)
Viral carcinogenesis, organism-specific biosystemThere is a strong association between viruses and the development of human malignancies. We now know that at least six human viruses, Epstein-Barr virus (EBV), hepatitis B virus (HBV), hepatitis C vi...
Viral carcinogenesis, conserved biosystem (from KEGG)
Viral carcinogenesis, conserved biosystemThere is a strong association between viruses and the development of human malignancies. We now know that at least six human viruses, Epstein-Barr virus (EBV), hepatitis B virus (HBV), hepatitis C vi...
p75 NTR receptor-mediated signalling, organism-specific biosystem (from REACTOME)
p75 NTR receptor-mediated signalling, organism-specific biosystemBesides signalling through the tyrosine kinase receptors TRK A, B, and C, the mature neurotrophins NGF, BDNF, and NT3/4 signal through their common receptor p75NTR. NGF binding to p75NTR activates a ...
p75NTR negatively regulates cell cycle via SC1, organism-specific biosystem (from REACTOME)
p75NTR negatively regulates cell cycle via SC1, organism-specific biosystemSC1 (Schwann Cell factor 1; also called PR domain zinc finger protein 4, PRDM4) interacts with an NGF:p75NTR complex and signals cell cycle arrest by regulating the levels of cyclin E.

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH48422 (e-PCR)
- UniSTS:38186

RH77985 (e-PCR)
- UniSTS:37215

WI-8367 (e-PCR)
- UniSTS:146569

RH70655 (e-PCR)
- UniSTS:68258

RH80765 (e-PCR)
- UniSTS:87751

RH64844 (e-PCR)
- UniSTS:90583

Homology

Homologs of the HDAC1 gene: The HDAC1 gene is conserved in chimpanzee, Rhesus monkey, dog, cow, mouse, rat, chicken, fruit fly, mosquito, C.elegans, S.cerevisiae, K.lactis, E.gossypii, S.pombe, M.oryzae, N.crassa, A.thaliana, rice, and frog.
Orthologs from Annotation Pipeline: 219 organisms have orthologs with human gene HDAC1
Orthologs

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
E-box binding	IEA Inferred from Electronic Annotation more info
Krueppel-associated box domain binding	IEA Inferred from Electronic Annotation more info
NAD-dependent histone deacetylase activity (H3-K14 specific)	IEA Inferred from Electronic Annotation more info
NF-kappaB binding	IPI Inferred from Physical Interaction more info	PubMed
RNA polymerase II core promoter sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
contributes_to RNA polymerase II distal enhancer sequence-specific DNA binding	HDA more info	PubMed
contributes_to RNA polymerase II proximal promoter sequence-specific DNA binding	HDA more info	PubMed
RNA polymerase II proximal promoter sequence-specific DNA binding	IGI Inferred from Genetic Interaction more info	PubMed
RNA polymerase II repressing transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
RNA polymerase II transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
activating transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
core promoter sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
deacetylase activity	ISS Inferred from Sequence or Structural Similarity more info
enzyme binding	IPI Inferred from Physical Interaction more info	PubMed
histone deacetylase activity	IBA Inferred from Biological aspect of Ancestor more info	PubMed
histone deacetylase activity	IDA Inferred from Direct Assay more info	PubMed
histone deacetylase activity	IMP Inferred from Mutant Phenotype more info	PubMed
histone deacetylase activity	TAS Traceable Author Statement more info	PubMed
histone deacetylase binding	IPI Inferred from Physical Interaction more info	PubMed
contributes_to nucleosomal DNA binding	HDA more info	PubMed
p53 binding	IPI Inferred from Physical Interaction more info	PubMed
promoter-specific chromatin binding	IEA Inferred from Electronic Annotation more info
protein N-terminus binding	IDA Inferred from Direct Assay more info	PubMed
protein binding	IPI Inferred from Physical Interaction more info	PubMed
protein deacetylase activity	IDA Inferred from Direct Assay more info	PubMed
protein deacetylase activity	IMP Inferred from Mutant Phenotype more info	PubMed
repressing transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
transcription corepressor activity	IDA Inferred from Direct Assay more info	PubMed
transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
transcription factor binding	TAS Traceable Author Statement more info	PubMed
transcription regulatory region DNA binding	IDA Inferred from Direct Assay more info	PubMed
transcription regulatory region sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
ATP-dependent chromatin remodeling	HDA more info	PubMed
beta-catenin-TCF complex assembly	TAS Traceable Author Statement more info
blood coagulation	TAS Traceable Author Statement more info
chromatin organization	TAS Traceable Author Statement more info	PubMed
chromatin remodeling	IC Inferred by Curator more info	PubMed
circadian regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
embryonic digit morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
endoderm development	IEA Inferred from Electronic Annotation more info
epidermal cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
eyelid development in camera-type eye	ISS Inferred from Sequence or Structural Similarity more info
fungiform papilla formation	ISS Inferred from Sequence or Structural Similarity more info
hair follicle placode formation	ISS Inferred from Sequence or Structural Similarity more info
hippocampus development	IEA Inferred from Electronic Annotation more info
histone H3 deacetylation	IBA Inferred from Biological aspect of Ancestor more info	PubMed
histone H3 deacetylation	IDA Inferred from Direct Assay more info	PubMed
histone H4 deacetylation	IBA Inferred from Biological aspect of Ancestor more info	PubMed
histone H4 deacetylation	IDA Inferred from Direct Assay more info	PubMed
histone deacetylation	IMP Inferred from Mutant Phenotype more info	PubMed
methylation-dependent chromatin silencing	IGI Inferred from Genetic Interaction more info	PubMed
negative regulation by host of viral transcription	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of I-kappaB kinase/NF-kappaB signaling	IEA Inferred from Electronic Annotation more info
negative regulation of androgen receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
negative regulation of apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
negative regulation of apoptotic process	TAS Traceable Author Statement more info	PubMed
negative regulation of canonical Wnt signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of intrinsic apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
NOT negative regulation of myotube differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
negative regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of transcription by RNA polymerase II	TAS Traceable Author Statement more info
negative regulation of transcription, DNA-templated	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of transcription, DNA-templated	ISS Inferred from Sequence or Structural Similarity more info
neuron differentiation	IEA Inferred from Electronic Annotation more info
odontogenesis of dentin-containing tooth	ISS Inferred from Sequence or Structural Similarity more info
positive regulation of cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
positive regulation of oligodendrocyte differentiation	IEA Inferred from Electronic Annotation more info
positive regulation of receptor biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info	PubMed
positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
positive regulation of transcription, DNA-templated	IDA Inferred from Direct Assay more info	PubMed
protein deacetylation	IDA Inferred from Direct Assay more info	PubMed
regulation of amyloid-beta clearance	IC Inferred by Curator more info	PubMed
regulation of endopeptidase activity	IMP Inferred from Mutant Phenotype more info	PubMed
regulation of megakaryocyte differentiation	TAS Traceable Author Statement more info
regulation of signal transduction by p53 class mediator	TAS Traceable Author Statement more info
regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
NuRD complex	IDA Inferred from Direct Assay more info	PubMed
Sin3 complex	IDA Inferred from Direct Assay more info	PubMed
Sin3-type complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed
chromatin	IDA Inferred from Direct Assay more info	PubMed
cytoplasm	TAS Traceable Author Statement more info	PubMed
cytosol	IDA Inferred from Direct Assay more info	PubMed
heterochromatin	IEA Inferred from Electronic Annotation more info
histone deacetylase complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed
histone deacetylase complex	TAS Traceable Author Statement more info	PubMed
neuronal cell body	IEA Inferred from Electronic Annotation more info
nuclear chromatin	HDA more info	PubMed
nuclear chromatin	IDA Inferred from Direct Assay more info	PubMed
nucleoplasm	IDA Inferred from Direct Assay more info	PubMed
nucleoplasm	TAS Traceable Author Statement more info
nucleus	IDA Inferred from Direct Assay more info	PubMed
protein-containing complex	HDA more info	PubMed
protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
transcription factor complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: histone deacetylase 1

Names: reduced potassium dependency, yeast homolog-like 1

NP_004955.2

EC 3.5.1.98

XP_011539611.1

EC 3.5.1.98

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

NG_047018.1 RefSeqGene

Range

5001..46517

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_004964.3 → NP_004955.2 histone deacetylase 1

See identical proteins and their annotated locations for NP_004955.2

Status: REVIEWED

Source sequence(s)

AL109945

Consensus CDS

CCDS360.1

UniProtKB/Swiss-Prot

Q13547

UniProtKB/TrEMBL

Q6IT96

Related

ENSP00000362649.3, ENST00000373548.7

Conserved Domains (1) summary

cd10010
Location:4 → 374

HDAC1; Histone deacetylase 1 (HDAC1)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

NC_000001.11 Reference GRCh38.p12 Primary Assembly

Range

32292103..32333628

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011541309.2 → XP_011539611.1 histone deacetylase 1 isoform X1

Conserved Domains (1) summary

cl17011
Location:1 → 181

Arginase_HDAC; Arginase-like and histone-like hydrolases