| Name | H4 clustered histone 3 |
| Description | Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Two molecules of each of the four core histones (H2A, H2B, H3, and H4) form an octamer, around which approximately 146 bp of DNA is wrapped in repeating units, called nucleosomes. The linker histone, H1, interacts with linker DNA between nucleosomes and functions in the compaction of chromatin into higher order structures. This gene is intronless and encodes a replication-dependent histone that is a member of the histone H4 family. Transcripts from this gene lack polyA tails but instead contain a palindromic termination element. This gene is found in the large histone gene cluster on chromosome 6. [provided by RefSeq, Aug 2015] |
| Summary |
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n Histone H4 “codes” – that is, the post‐translational modifications localized on the H4 tail – play central roles in orchestrating chromatin dynamics. For example, acetylation of lysine 16 on H4 (H4‐K16Ac) relaxes chromatin by preventing the formation of compact fibers and by altering nucleosome–nucleosome interactions, thereby modulating both higher order structure and access of remodeling enzymes to DNA (for example."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": " In addition, specific methylation events on H4 – such as dimethylation of lysine 20 – serve as binding platforms for key effectors; the recognition of H4‐K20me2 by tandem tudor domains, for instance, underlies the recruitment of important DNA repair proteins that direct double‐strand break repair and genome stability."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n Moreover, enzymes that “write” and “erase” these modifications – including histone acetyltransferases such as Tip60 and deacetylases from the sirtuin family – modulate not only chromatin accessibility but also functional interactions with nonhistone proteins. Through dynamic cycles of acetylation and deacetylation (for example, by SIRT1 and SIRT2), histone H4 modifications contribute to processes as diverse as cell cycle progression, centromere assembly, DNA damage response and even metabolic regulation."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n In addition, alteration in the “H4 code” is implicated in pathologic states including oncogenesis, aging, and aberrant transcription. Changes in H4 acetylation and methylation can influence the recruitment of chromatin regulators and transcription factors – as seen when bromodomain proteins interact with diacetylated H4 motifs or when altered recognition by repair factors shifts the balance between homologous recombination and nonhomologous end joining."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "7"}]}, {"type": "t", "text": " Such multifaceted regulatory mechanisms highlight how the combinatorial readout of H4 modifications directs essential cellular outcomes by controlling chromatin structure and gene expression."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "9"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n In summary, the “H4 code” functions as a versatile epigenetic platform. Its modifications are key determinants of chromatin compaction, serve as docking sites for effector proteins in DNA repair and transcription, and are dynamically modulated to integrate signals from metabolism, cell cycle status and extracellular cues. Collectively, these studies support a model in which histone H4 modifications function as critical regulators of chromatin plasticity and genome integrity."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "7"}, {"type": "fg_f", "ref": "1"}, {"type": "fg_f", "ref": "3"}, {"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": "\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Michael Shogren-Knaak, Haruhiko Ishii, Jian-Min Sun, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Histone H4-K16 acetylation controls chromatin structure and protein interactions."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Science (2006)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1126/science.1124000"}], "href": "https://doi.org/10.1126/science.1124000"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "16469925"}], "href": "https://pubmed.ncbi.nlm.nih.gov/16469925"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Alejandro Vaquero, Michael B Scher, Dong Hoon Lee, et al. "}, {"type": "b", "children": [{"type": "t", "text": "SirT2 is a histone deacetylase with preference for histone H4 Lys 16 during mitosis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Genes Dev (2006)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1101/gad.1412706"}], "href": "https://doi.org/10.1101/gad.1412706"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "16648462"}], "href": "https://pubmed.ncbi.nlm.nih.gov/16648462"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Maria Victoria Botuyan, Joseph Lee, Irene M Ward, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Structural basis for the methylation state-specific recognition of histone H4-K20 by 53BP1 and Crb2 in DNA repair."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cell (2006)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.cell.2006.10.043"}], "href": "https://doi.org/10.1016/j.cell.2006.10.043"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "17190600"}], "href": "https://pubmed.ncbi.nlm.nih.gov/17190600"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Huadong Pei, Lindsey Zhang, Kuntian Luo, et al. "}, {"type": "b", "children": [{"type": "t", "text": "MMSET regulates histone H4K20 methylation and 53BP1 accumulation at DNA damage sites."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nature (2011)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/nature09658"}], "href": "https://doi.org/10.1038/nature09658"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "21293379"}], "href": "https://pubmed.ncbi.nlm.nih.gov/21293379"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Yasukazu Nakahata, Milota Kaluzova, Benedetto Grimaldi, et al. "}, {"type": "b", "children": [{"type": "t", "text": "The NAD+-dependent deacetylase SIRT1 modulates CLOCK-mediated chromatin remodeling and circadian control."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cell (2008)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.cell.2008.07.002"}], "href": "https://doi.org/10.1016/j.cell.2008.07.002"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "18662547"}], "href": "https://pubmed.ncbi.nlm.nih.gov/18662547"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Raphael Margueron, Neil Justin, Katsuhito Ohno, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Role of the polycomb protein EED in the propagation of repressive histone marks."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nature (2009)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/nature08398"}], "href": "https://doi.org/10.1038/nature08398"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "19767730"}], "href": "https://pubmed.ncbi.nlm.nih.gov/19767730"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Anup Dey, Farideh Chitsaz, Asim Abbasi, et al. "}, {"type": "b", "children": [{"type": "t", "text": "The double bromodomain protein Brd4 binds to acetylated chromatin during interphase and mitosis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Proc Natl Acad Sci U S A (2003)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1073/pnas.1433065100"}], "href": "https://doi.org/10.1073/pnas.1433065100"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "12840145"}], "href": "https://pubmed.ncbi.nlm.nih.gov/12840145"}]}, {"type": "r", "ref": 8, "children": [{"type": "t", "text": "Michael D Kornberg, Nilkantha Sen, Makoto R Hara, et al. "}, {"type": "b", "children": [{"type": "t", "text": "GAPDH mediates nitrosylation of nuclear proteins."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Cell Biol (2010)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/ncb2114"}], "href": "https://doi.org/10.1038/ncb2114"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "20972425"}], "href": "https://pubmed.ncbi.nlm.nih.gov/20972425"}]}, {"type": "r", "ref": 9, "children": [{"type": "t", "text": "Timothy W Bredy, Hao Wu, Cortney Crego, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Histone modifications around individual BDNF gene promoters in prefrontal cortex are associated with extinction of conditioned fear."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Learn Mem (2007)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1101/lm.500907"}], "href": "https://doi.org/10.1101/lm.500907"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "17522015"}], "href": "https://pubmed.ncbi.nlm.nih.gov/17522015"}]}, {"type": "r", "ref": 10, "children": [{"type": "t", "text": "Heehyoung Lee, Andreas Herrmann, Jie-Hui Deng, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Persistently activated Stat3 maintains constitutive NF-kappaB activity in tumors."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cancer Cell (2009)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.ccr.2009.02.015"}], "href": "https://doi.org/10.1016/j.ccr.2009.02.015"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "19345327"}], "href": "https://pubmed.ncbi.nlm.nih.gov/19345327"}]}]}]}
|
| NCBI Gene ID | 8364 |
| API | |
| Download Associations | |
| Predicted Functions |
![]() |
| Co-expressed Genes |
![]() |
| Expression in Tissues and Cell Lines |
![]() |
H4C3 has 920 functional associations with biological entities spanning 5 categories (disease, phenotype or trait, chemical, functional term, phrase or reference, cell line, cell type or tissue, gene, protein or microRNA) extracted from 11 datasets.
Click the + buttons to view associations for H4C3 from the datasets below.
If available, associations are ranked by standardized value
| Dataset | Summary | |
|---|---|---|
| Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles | tissue samples with high or low expression of H4C3 gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset. | |
| CM4AI KOLF21J CRISPRi Gene Perturbation Atlas | gene perturbations changing expression of H4C3 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset. | |
| DISEASES Experimental Gene-Disease Association Evidence Scores 2025 | diseases associated with H4C3 gene in GWAS datasets from the DISEASES Experimental Gene-Disease Assocation Evidence Scores 2025 dataset. | |
| DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 | diseases co-occuring with H4C3 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset. | |
| GTEx Tissue Gene Expression Profiles 2023 | tissues with high or low expression of H4C3 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles 2023 dataset. | |
| HuBMAP Azimuth Cell Type Annotations | cell types associated with H4C3 gene from the HuBMAP Azimuth Cell Type Annotations dataset. | |
| Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures | gene perturbations changing expression of H4C3 gene from the Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures dataset. | |
| Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures | gene perturbations changing expression of H4C3 gene from the Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures dataset. | |
| Rummagene Transcription Factor Associations 2026 | transcription factors regulating expression of H4C3 gene from the Rummagene Transcription Factor Associations 2026 dataset. | |
| Sci-Plex Drug Perturbation Signatures | drug perturbations changing expression of H4C3 gene from the Sci-Plex Drug Perturbation Signatures dataset. | |
| WikiPathways Pathways 2024 | pathways involving H4C3 protein from the WikiPathways Pathways 2024 dataset. | |