Manteia

ENSG00000116478

Homo sapiens

Features

Gene ID:	ENSG00000116478

Biological name :	HDAC1

Synonyms :	HDAC1 / histone deacetylase 1 / Q13547

Possible biological names infered from orthology :

Species:	Homo sapiens

Chr. number:	1
Strand:	1
Band:	p35.2
Gene start:	32292086
Gene end:	32333635

Corresponding Affymetrix probe sets:	201209_at (Human Genome U133 Plus 2.0 Array)

Cross references:	Ensembl peptide - ENSP00000362649 Ensembl peptide - ENSP00000407859 NCBI entrez gene - 3065 See in Manteia. OMIM - 601241 RefSeq - XM_011541309 RefSeq - NM_004964 RefSeq Peptide - NP_004955 swissprot - Q13547 swissprot - Q5TEE2 swissprot - Q6IT96 Ensembl - ENSG00000116478

See expression report in BioGPS
See gene description in Wikigenes
See gene description in GeneCards
See co-cited genes in PubMed

Ortholog prediction (from Ensembl)

Ortholog name	ID	Species
hdac1	ENSDARG00000015427	Danio rerio
HDAC1	ENSGALG00000003297	Gallus gallus
Gm10093	ENSMUSG00000061062	Mus musculus
Hdac1	ENSMUSG00000028800	Mus musculus

Paralog prediction (from Ensembl)

Paralog name	ID	Similarity(%)
HDAC2 / Q92769 / histone deacetylase 2	ENSG00000196591	86
HDAC3 / O15379 / histone deacetylase 3	ENSG00000171720	52
HDAC8 / Q9BY41 / histone deacetylase 8	ENSG00000147099	33
HDAC11 / Q96DB2 / histone deacetylase 11	ENSG00000163517	19

Protein motifs (from Interpro)

Interpro ID	Name
IPR000286	Histone deacetylase family
IPR003084	Histone deacetylase
IPR023696	Ureohydrolase domain superfamily
IPR023801	Histone deacetylase domain
IPR037138	Histone deacetylase domain superfamily

Gene Ontology (GO)

Type	GO ID	Term	Ev.Code
biological_process	GO:0000122	negative regulation of transcription by RNA polymerase II	TAS
biological_process	GO:0006325	chromatin organization	TAS
biological_process	GO:0006338	chromatin remodeling	IC
biological_process	GO:0006346	methylation-dependent chromatin silencing	IGI
biological_process	GO:0006351	transcription, DNA-templated	IEA
biological_process	GO:0006355	regulation of transcription, DNA-templated	IEA
biological_process	GO:0006476	protein deacetylation	IDA
biological_process	GO:0007596	blood coagulation	TAS
biological_process	GO:0008284	positive regulation of cell proliferation	IMP
biological_process	GO:0009913	epidermal cell differentiation	ISS
biological_process	GO:0010629	negative regulation of gene expression	IMP
biological_process	GO:0010870	positive regulation of receptor biosynthetic process	IMP
biological_process	GO:0016032	viral process	IEA
biological_process	GO:0016575	histone deacetylation	IEA
biological_process	GO:0032922	circadian regulation of gene expression	ISS
biological_process	GO:0042475	odontogenesis of dentin-containing tooth	ISS
biological_process	GO:0042733	embryonic digit morphogenesis	ISS
biological_process	GO:0043044	ATP-dependent chromatin remodeling	HDA
biological_process	GO:0043066	negative regulation of apoptotic process	TAS
biological_process	GO:0043922	negative regulation by host of viral transcription	IMP
biological_process	GO:0045652	regulation of megakaryocyte differentiation	TAS
biological_process	GO:0045892	negative regulation of transcription, DNA-templated	ISS
biological_process	GO:0045893	positive regulation of transcription, DNA-templated	IDA
biological_process	GO:0045944	positive regulation of transcription by RNA polymerase II	IDA
biological_process	GO:0048511	rhythmic process	IEA
biological_process	GO:0060766	negative regulation of androgen receptor signaling pathway	IDA
biological_process	GO:0060789	hair follicle placode formation	ISS
biological_process	GO:0061029	eyelid development in camera-type eye	ISS
biological_process	GO:0061198	fungiform papilla formation	ISS
biological_process	GO:0070932	histone H3 deacetylation	IDA
biological_process	GO:0070933	histone H4 deacetylation	IDA
biological_process	GO:0090090	negative regulation of canonical Wnt signaling pathway	IGI
biological_process	GO:1901796	regulation of signal transduction by p53 class mediator	TAS
biological_process	GO:1904837	beta-catenin-TCF complex assembly	TAS
cellular_component	GO:0000118	histone deacetylase complex	TAS
cellular_component	GO:0000785	chromatin	IDA
cellular_component	GO:0000790	nuclear chromatin	IDA
cellular_component	GO:0005634	nucleus	IEA
cellular_component	GO:0005654	nucleoplasm	TAS
cellular_component	GO:0005737	cytoplasm	TAS
cellular_component	GO:0005829	cytosol	IDA
cellular_component	GO:0016580	Sin3 complex	IDA
cellular_component	GO:0016581	NuRD complex	IDA
cellular_component	GO:0032991	protein-containing complex	IDA
molecular_function	GO:0000976	transcription regulatory region sequence-specific DNA binding	ISS
molecular_function	GO:0000978	RNA polymerase II proximal promoter sequence-specific DNA binding	HDA
molecular_function	GO:0000980	RNA polymerase II distal enhancer sequence-specific DNA binding	HDA
molecular_function	GO:0001046	core promoter sequence-specific DNA binding	IDA
molecular_function	GO:0001047	core promoter binding	IDA
molecular_function	GO:0001085	RNA polymerase II transcription factor binding	IPI
molecular_function	GO:0001103	RNA polymerase II repressing transcription factor binding	IPI
molecular_function	GO:0002039	p53 binding	IPI
molecular_function	GO:0003700	DNA-binding transcription factor activity	TAS
molecular_function	GO:0004407	histone deacetylase activity	IEA
molecular_function	GO:0005515	protein binding	IPI
molecular_function	GO:0008134	transcription factor binding	TAS
molecular_function	GO:0016787	hydrolase activity	IEA
molecular_function	GO:0019213	deacetylase activity	ISS
molecular_function	GO:0019899	enzyme binding	IPI
molecular_function	GO:0031492	nucleosomal DNA binding	HDA
molecular_function	GO:0032041	NAD-dependent histone deacetylase activity (H3-K14 specific)	IEA
molecular_function	GO:0033558	protein deacetylase activity	IMP
molecular_function	GO:0033613	activating transcription factor binding	IPI
molecular_function	GO:0042826	histone deacetylase binding	IPI
molecular_function	GO:0044212	transcription regulatory region DNA binding	IDA
molecular_function	GO:0046872	metal ion binding	IEA
molecular_function	GO:0047485	protein N-terminus binding	IDA
molecular_function	GO:0051059	NF-kappaB binding	IPI
molecular_function	GO:0070491	repressing transcription factor binding	IPI

Pathways (from Reactome)

Pathway description

Transcription of E2F targets under negative control by DREAM complex

Transcription of E2F targets under negative control by p107 (RBL1) and p130 (RBL2) in complex with HDAC1

G0 and Early G1

p75NTR negatively regulates cell cycle via SC1

Formation of the beta-catenin:TCF transactivating complex

NOTCH1 Intracellular Domain Regulates Transcription

Downregulation of SMAD2/3:SMAD4 transcriptional activity

SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription

Constitutive Signaling by NOTCH1 PEST Domain Mutants

Constitutive Signaling by NOTCH1 HD+PEST Domain Mutants

HDACs deacetylate histones

Deactivation of the beta-catenin transactivating complex

ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression

NoRC negatively regulates rRNA expression

SUMOylation of chromatin organization proteins

Repression of WNT target genes

Activation of E2F1 target genes at G1/S

Regulation of TP53 Activity through Acetylation

RNA Polymerase I Transcription Initiation

RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function

Regulation of PTEN gene transcription

Estrogen-dependent gene expression

Factors involved in megakaryocyte development and platelet production

Phenotype (from MGI, Zfin or HPO)

Phenotype

Definition

Genetic BG

No match

Interacting proteins (from Reactome)

Interactor ID	Name	Interaction type
ENSG00000129514	FOXA1 / P55317 / forkhead box A1	/ reaction
ENSG00000132475	H3F3B / P84243 / H3 histone family member 3B	/ complex / reaction
ENSG00000138795	LEF1 / Q9UJU2 / lymphoid enhancer binding factor 1	/ complex / reaction
ENSG00000169057	MECP2 / P51608 / methyl-CpG binding protein 2	/ complex / reaction
ENSG00000084093	REST / Q13127 / RE1 silencing transcription factor	/ complex
ENSG00000148737	Q9NQB0 / TCF7L2 / transcription factor 7 like 2	/ complex / reaction
ENSG00000183598	Q71DI3 / HIST2H3D / histone cluster 2 H3 family member d	/ complex / reaction
ENSG00000107485	GATA3 / P23771 / GATA binding protein 3	/ reaction
ENSG00000168036	CTNNB1 / P35222 / catenin beta 1	/ reaction
ENSG00000110851	PRDM4 / Q9UKN5 / PR/SET domain 4	/ complex / reaction
ENSG00000100811	YY1 / P25490 / YY1 transcription factor	/ complex
ENSG00000175387	SMAD2 / Q15796 / SMAD family member 2	/ complex / reaction
ENSG00000065717	TLE2 / Q04725 / transducin like enhancer of split 2	/ complex / reaction
ENSG00000089902	RCOR1 / Q9UKL0 / REST corepressor 1	/ complex
ENSG00000103479	RBL2 / Q08999 / RB transcriptional corepressor like 2	/ complex / reaction
ENSG00000133740	E2F5 / Q15329 / E2F transcription factor 5	/ complex / reaction
ENSG00000106829	TLE4 / Q04727 / transducin like enhancer of split 4	/ complex / reaction
ENSG00000067955	CBFB / Q13951 / core-binding factor beta subunit	/ complex / reaction
ENSG00000159216	RUNX1 / Q01196 / runt related transcription factor 1	/ complex / reaction
ENSG00000166949	SMAD3 / P84022 / SMAD family member 3	/ complex / reaction
ENSG00000141646	SMAD4 / Q13485 / SMAD family member 4	/ complex / reaction
ENSG00000140332	TLE3 / Q04726 / transducin like enhancer of split 3	/ complex / reaction
ENSG00000177426	TGIF1 / Q15583 / TGFB induced factor homeobox 1	/ complex / reaction
ENSG00000103275	UBE2I / P63279 / ubiquitin conjugating enzyme E2 I	/ reaction
ENSG00000080839	RBL1 / P28749 / RB transcriptional corepressor like 1	/ complex / reaction
ENSG00000004487	KDM1A / O60341 / lysine demethylase 1A	/ complex
ENSG00000169375	SIN3A / Q96ST3 / SIN3 transcription regulator family member A	/ complex / reaction
ENSG00000196591	HDAC2 / Q92769 / histone deacetylase 2	/ complex
ENSG00000198890	PRMT6 / Q96LA8 / protein arginine methyltransferase 6	/ complex / reaction
ENSG00000118707	TGIF2 / Q9GZN2 / TGFB induced factor homeobox 2	/ complex / reaction
ENSG00000116478	HDAC1 / Q13547 / histone deacetylase 1	/ complex
ENSG00000196781	TLE1 / Q04724 / transducin like enhancer of split 1	/ complex / reaction
ENSG00000205250	E2F4 / Q16254 / E2F transcription factor 4	/ complex / reaction
ENSG00000116030	SUMO1 / P63165 / small ubiquitin-like modifier 1	/ reaction / complex
ENSG00000198176	TFDP1 / Q14186 / transcription factor Dp-1	/ complex / reaction
ENSG00000114126	TFDP2 / Q14188 / transcription factor Dp-2	/ complex / reaction
ENSG00000276180	P62805 / HIST1H4I / histone cluster 1 H4 family member i	/ complex / reaction
ENSG00000275714	P68431 / HIST1H3A / histone cluster 1 H3 family member a	/ complex / reaction

1 s.

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		© Olivier Tassy / Olivier Pourquie 2007-2025 contact: otassy@igbmc.fr