H1-1 Gene

Name H1.1 linker histone, cluster member
Description Histones are basic nuclear proteins responsible for 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 H1 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 Linker histone H1‐1 is a member of the H1 family that plays a critical role in organizing higher‐order chromatin structure and regulating gene expression. Its ability to bind chromatin with high affinity depends on an intact C‐terminal domain, and studies using live‐cell fluorescence recovery after photobleaching have shown that point mutations—such as a glutamic acid substitution at a key residue—can markedly destabilize H1.1–chromatin interactions, indicating that specific amino acids (e.g., Thr‑152, Ser‑183) act as regulatory switches to modulate chromatin compaction."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Complementary mass spectrometry analyses have mapped a range of post‐translational modifications—including N‐terminal acetylation and multiple phosphorylation events—on H1 isoforms, suggesting that these chemical modifications fine‐tune its binding dynamics and influence its role in gene‐specific regulation."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Moreover, genome-wide mapping studies using variant-specific antibodies reveal that individual H1 isoforms, including H1.1, exhibit distinct localization patterns. These patterns correlate with chromatin features such as GC content, nucleosome spacing, and the presence of active or repressive histone marks, underlining a specialized function for H1.1 in modulating transcription—particularly by influencing promoter accessibility and higher-order chromatin organization."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Finally, investigations into transcriptional regulation at hormone-inducible promoters indicate that the phosphorylation state of specific H1 isoforms can directly alter transcriptional competence by modifying chromatin structure, thereby affecting gene activation and repression. This dynamic role positions H1.1 as an important mediator linking extracellular signals to alterations in chromatin that ultimately govern gene expression."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": "\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Michael J Hendzel, Melody A Lever, Ellen Crawford, et al. "}, {"type": "b", "children": [{"type": "t", "text": "The C-terminal domain is the primary determinant of histone H1 binding to chromatin in vivo."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2004)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M400070200"}], "href": "https://doi.org/10.1074/jbc.M400070200"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "14985337"}], "href": "https://pubmed.ncbi.nlm.nih.gov/14985337"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Benjamin A Garcia, Scott A Busby, Cynthia M Barber, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Characterization of phosphorylation sites on histone H1 isoforms by tandem mass spectrometry."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Proteome Res (2004)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1021/pr0498887"}], "href": "https://doi.org/10.1021/pr0498887"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "15595731"}], "href": "https://pubmed.ncbi.nlm.nih.gov/15595731"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Lluís Millán-Ariño, Abul B M M K Islam, Andrea Izquierdo-Bouldstridge, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Mapping of six somatic linker histone H1 variants in human breast cancer cells uncovers specific features of H1.2."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nucleic Acids Res (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/nar/gku079"}], "href": "https://doi.org/10.1093/nar/gku079"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24476918"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24476918"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "G C Banks, L J Deterding, K B Tomer, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Hormone-mediated dephosphorylation of specific histone H1 isoforms."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2001)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M104641200"}], "href": "https://doi.org/10.1074/jbc.M104641200"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "11479299"}], "href": "https://pubmed.ncbi.nlm.nih.gov/11479299"}]}]}]}
NCBI Gene ID 3024
API
Download Associations
Predicted Functions View H1-1's ARCHS4 Predicted Functions.
Co-expressed Genes View H1-1's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View H1-1's ARCHS4 Predicted Functions.

Functional Associations

H1-1 has 2,039 functional associations with biological entities spanning 5 categories (chemical, functional term, phrase or reference, disease, phenotype or trait, cell line, cell type or tissue, gene, protein or microRNA) extracted from 32 datasets.

Click the + buttons to view associations for H1-1 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 H1-1 gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset.
Carcinogenome Chemical Perturbation Carcinogenicity Signatures small molecule perturbations changing expression of H1-1 gene from the Carcinogenome Chemical Perturbation Carcinogenicity Signatures dataset.
CCLE Cell Line Proteomics Cell lines associated with H1-1 protein from the CCLE Cell Line Proteomics dataset.
CM4AI KOLF21J CRISPRi Gene Perturbation Atlas gene perturbations changing expression of H1-1 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset.
CM4AI U2OS Cell Map Protein Localization Assemblies assemblies containing H1-1 protein from integrated AP-MS and IF data from the CM4AI U2OS Cell Map Protein Localization Assemblies dataset.
COMPARTMENTS Curated Protein Localization Evidence Scores 2025 cellular components containing H1-1 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset.
COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 cellular components co-occuring with H1-1 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 dataset.
DepMap CRISPR Gene Dependency cell lines with fitness changed by H1-1 gene knockdown relative to other cell lines from the DepMap CRISPR Gene Dependency dataset.
DISEASES Experimental Gene-Disease Association Evidence Scores 2025 diseases associated with H1-1 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 H1-1 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset.
DisGeNET Gene-Disease Associations diseases associated with H1-1 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset.
GO Biological Process Annotations 2023 biological processes involving H1-1 gene from the curated GO Biological Process Annotations 2023 dataset.
GO Biological Process Annotations 2025 biological processes involving H1-1 gene from the curated GO Biological Process Annotations2025 dataset.
GO Cellular Component Annotations 2023 cellular components containing H1-1 protein from the curated GO Cellular Component Annotations 2023 dataset.
GO Cellular Component Annotations 2025 cellular components containing H1-1 protein from the curated GO Cellular Component Annotations 2025 dataset.
GO Molecular Function Annotations 2023 molecular functions performed by H1-1 gene from the curated GO Molecular Function Annotations 2023 dataset.
GO Molecular Function Annotations 2025 molecular functions performed by H1-1 gene from the curated GO Molecular Function Annotations 2025 dataset.
GTEx Tissue Gene Expression Profiles 2023 tissues with high or low expression of H1-1 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles 2023 dataset.
GWAS Catalog SNP-Phenotype Associations 2025 phenotypes associated with H1-1 gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations 2025 dataset.
JASPAR Predicted Human Transcription Factor Targets 2025 transcription factors regulating expression of H1-1 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Human Transcription Factor Targets dataset.
JASPAR Predicted Mouse Transcription Factor Targets 2025 transcription factors regulating expression of H1-1 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Mouse Transcription Factor Targets 2025 dataset.
LINCS L1000 CMAP Chemical Perturbation Consensus Signatures small molecule perturbations changing expression of H1-1 gene from the LINCS L1000 CMAP Chemical Perturbations Consensus Signatures dataset.
MGI Mouse Phenotype Associations 2023 phenotypes of transgenic mice caused by H1-1 gene mutations from the MGI Mouse Phenotype Associations 2023 dataset.
PFOCR Pathway Figure Associations 2024 pathways involving H1-1 protein from the Wikipathways PFOCR 2024 dataset.
Reactome Pathways 2024 pathways involving H1-1 protein from the Reactome Pathways 2024 dataset.
Rummagene Transcription Factor Associations 2026 transcription factors regulating expression of H1-1 gene from the Rummagene Transcription Factor Associations 2026 dataset.
RummaGEO Drug Perturbation Signatures drug perturbations changing expression of H1-1 gene from the RummaGEO Drug Perturbation Signatures dataset.
RummaGEO Gene Perturbation Signatures gene perturbations changing expression of H1-1 gene from the RummaGEO Gene Perturbation Signatures dataset.
Sanger Dependency Map Cancer Cell Line Proteomics cell lines associated with H1-1 protein from the Sanger Dependency Map Cancer Cell Line Proteomics dataset.
TISSUES Curated Tissue Protein Expression Evidence Scores 2025 tissues with high expression of H1-1 protein from the TISSUES Curated Tissue Protein Expression Evidence Scores 2025 dataset.
TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 tissues with high expression of H1-1 protein in proteomics datasets from the TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 dataset.
TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 tissues co-occuring with H1-1 protein in abstracts of biomedical publications from the TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 dataset.