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Histone deacetylase 1; Histone deacetylase 3 (HDAC1; HDAC3)

Target
HDAC1; HDAC3
Molecular classification
Enzyme, Histone modification enzyme, Class I histone deacetylase (HDAC), Epigenetic regulator
01

Overview

Histone deacetylase 1 (HDAC1) and histone deacetylase 3 (HDAC3) are Class I HDAC enzymes that catalyze the removal of acetyl groups from lysine residues on histone and non-histone proteins, crucial for the regulation of chromatin structure and gene expression[1][4][5][7]. HDAC1 is strictly nuclear and constitutes part of large corepressor complexes, while HDAC3 shuttles dynamically between nucleus and cytoplasm, modulating diverse biological processes from circadian rhythm to inflammation[7][4]. Both HDAC1 and HDAC3 play essential roles in cell cycle regulation, apoptosis, differentiation, and the cellular response to stress and DNA damage[1][3][4]. Aberrant HDAC1/3 activity is implicated in cancer, neurodegeneration, inflammatory states, and fibrosis[2][4][6][8]. Several drugs targeting HDAC1/HDAC3, including FDA-approved HDAC inhibitors (vorinostat, romidepsin), are used in clinical cancer therapy, with ongoing efforts to develop more selective, safer inhibitors for broader indications[2][8]. HDACs also set the stage for combinatorial therapies in epigenetic and inflammatory diseases[2][6][8].

Other names
HDAC1 (for Histone deacetylase 1)HDAC3 (for Histone deacetylase 3)Histone deacetylase I (deprecated, sometimes used for early HDACs)Rpd3 homolog (context: yeast HDAC1)
02

Mechanism of action

Inhibition of HDAC enzyme activity: prevents removal of acetyl groups from histone and sometimes non-histone proteins, resulting in relaxed chromatin and upregulation of previously silenced gene transcription. Induction of cell cycle arrest, apoptosis, and differentiation, particularly in cancer cells. Modulation of inflammatory pathways (HDAC3 and NF-κB acetylation). Epigenetic reprogramming.

03

Biological functions

Chromatin remodelingRegulation of gene transcriptionCell cycle progression and proliferationCell differentiationApoptosis regulationRegulation of circadian rhythm (HDAC3)Modulation of inflammatory gene expression (HDAC3)Deacetylation of non-histone proteins (including p53, NF-κB, tau)
04

Disease associations

CancerInflammation (especially HDAC3)Neurodegenerative diseases (e.g., Alzheimer’s, HDAC3)FibrosisCardiovascular disease (HDACs in development/metabolism)Infection (HDAC modulation of immune genes)Other: ischemic injury, metabolic disorders
05

Safety considerations

Lack of isoform selectivity: pan-HDAC inhibition may cause off-target effects, including hematological toxicities, GI symptoms, fatigue, and cardiac arrhythmiaEffects on non-histone protein acetylation can impact normal cell functions.Potential for immunosuppression or unwanted inflammation (HDAC3).Neurocognitive effects or exacerbation of neurodegeneration if not carefully targeted.
06

Interacting drugs

Vorinostat (SAHA)

7 more in the full profile.

07

Biomarkers

Levels of acetylated histones H3 or H4 (global or locus-specific)Increased RUNX3 acetylation (tumor suppressor)Acetylation status of p53, tau, NF-κB (functional output)Expression/activity profiles of HDAC1 or HDAC3 in patient tissue/cancer

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