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 ... See more...

Aliases for H4C11 Gene

Aliases for H4C11 Gene

  • H4 Clustered Histone 11 2 3 5
  • H4/E 2 3 4
  • Histone Cluster 1 H4 Family Member J 2 3
  • H4 Histone Family, Member E 2 3
  • Histone Cluster 1, H4j 2 3
  • Histone 1, H4j 2 3
  • Histone H4 3 4
  • HIST1H4J 3 4
  • H4F2iv 2 3
  • H4FE 3 4
  • DJ160A22.2 3
  • HIST1H4A 4
  • HIST1H4B 4
  • HIST1H4C 4
  • HIST1H4D 4
  • HIST1H4E 4
  • HIST1H4F 4
  • HIST1H4H 4
  • HIST1H4I 4
  • HIST1H4K 4
  • HIST1H4L 4
  • HIST2H4A 4
  • HIST2H4B 4
  • HIST2H4 4
  • HIST4H4 4
  • H4-16 3
  • H4C12 3
  • H4C13 3
  • H4C14 3
  • H4C15 3
  • H4C11 5
  • H4C1 3
  • H4C2 3
  • H4C3 3
  • H4C4 3
  • H4C5 3
  • H4C6 3
  • H4C8 3
  • H4C9 3
  • H4/A 4
  • H4FA 4
  • H4/I 4
  • H4FI 4
  • H4/G 4
  • H4FG 4
  • H4/B 4
  • H4FB 4
  • H4/J 4
  • H4FJ 4
  • H4/C 4
  • H4FC 4
  • H4/H 4
  • H4FH 4
  • H4/M 4
  • H4FM 4
  • H4/D 4
  • H4FD 4
  • H4/K 4
  • H4FK 4
  • H4/N 4
  • H4F2 4
  • H4FN 4
  • H4/O 4
  • H4FO 4

External Ids for H4C11 Gene

Previous HGNC Symbols for H4C11 Gene

  • H4FE
  • HIST1H4J

Previous GeneCards Identifiers for H4C11 Gene

  • GC06P027910
  • GC06P028137

Summaries for H4C11 Gene

Entrez Gene Summary for H4C11 Gene

  • 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 small histone gene cluster on chromosome 6p22-p21.3. [provided by RefSeq, Aug 2015]

GeneCards Summary for H4C11 Gene

H4C11 (H4 Clustered Histone 11) is a Protein Coding gene. Diseases associated with H4C11 include B-Cell Non-Hodgkin Lymphoma and Alpha-Thalassemia/Mental Retardation Syndrome, X-Linked. Among its related pathways are Chromatin organization and Signaling by GPCR. An important paralog of this gene is H4C5.

UniProtKB/Swiss-Prot Summary for H4C11 Gene

  • Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Additional gene information for H4C11 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for H4C11 Gene

Genomics for H4C11 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for H4C11 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06J027821 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 600.7 +0.5 505 6 SP1 CREB1 HNRNPL ZNF629 PRDM10 REST LEF1 IKZF1 POLR2A BACH1 H4C11 lnc-HIST1H4J-1 piR-36107-001 piR-31432-570 piR-40154-159 piR-49732-487 piR-53431-582 piR-54764-539 H2BC15 ZKSCAN4
GH06J027851 Enhancer 0.3 Ensembl 11.5 +27.3 27309 0.4 ZBTB12 ZNF603P H4C11 H3C12 H2BC13 H2BC12 lnc-HIST1H2AL-1 H2AC15 H2AC16 H2BC15
GH06J027828 Promoter/Enhancer 2 Ensembl ENCODE CraniofacialAtlas dbSUPER 0.4 +6.7 6704 4 SP1 HNRNPL LEF1 POLR2A BACH1 LARP7 DDX20 MTA2 PHF21A RELA H4C12 piR-36107-002 ZKSCAN8 ZKSCAN3 ZSCAN12 ZSCAN9 GUSBP2 ZKSCAN4 ZSCAN23 ZNF603P
GH06J027819 Enhancer 0.7 ENCODE 0.7 -4.3 -4270 1.6 CTCF RAD21 BRD9 TRIM22 PAX8 HMBOX1 RELB SMARCA5 ZNF316 SMC3 ZNF603P H2BC14 H4C11 RF00017-5387
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around H4C11 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for H4C11

Genomic Locations for H4C11 Gene

Genomic Locations for H4C11 Gene
chr6:27,824,092-27,824,480
(GRCh38/hg38)
Size:
389 bases
Orientation:
Plus strand
chr6:27,791,884-27,792,258
(GRCh37/hg19)
Size:
375 bases
Orientation:
Plus strand

Genomic View for H4C11 Gene

Genes around H4C11 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
H4C11 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for H4C11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for H4C11 Gene

Proteins for H4C11 Gene

  • Protein details for H4C11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P62805-H4_HUMAN
    Recommended name:
    Histone H4
    Protein Accession:
    P62805
    Secondary Accessions:
    • A2VCL0
    • P02304
    • P02305
    • Q6DRA9
    • Q6FGB8
    • Q6NWP7

    Protein attributes for H4C11 Gene

    Size:
    103 amino acids
    Molecular mass:
    11367 Da
    Quaternary structure:
    • The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA.
    SequenceCaution:
    • Sequence=AAI28106.1; Type=Frameshift; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for H4C11 Gene

neXtProt entry for H4C11 Gene

Post-translational modifications for H4C11 Gene

  • Acetylation at Lys-6 (H4K5ac), Lys-9 (H4K8ac), Lys-13 (H4K12ac) and Lys-17 (H4K16ac) occurs in coding regions of the genome but not in heterochromatin.
  • Citrullination at Arg-4 (H4R3ci) by PADI4 impairs methylation.
  • Monomethylation and asymmetric dimethylation at Arg-4 (H4R3me1 and H4R3me2a, respectively) by PRMT1 favors acetylation at Lys-9 (H4K8ac) and Lys-13 (H4K12ac). Demethylation is performed by JMJD6. Symmetric dimethylation on Arg-4 (H4R3me2s) by the PRDM1/PRMT5 complex may play a crucial role in the germ-cell lineage.
  • Monomethylated, dimethylated or trimethylated at Lys-21 (H4K20me1, H4K20me2, H4K20me3) (PubMed:12086618, PubMed:15964846, PubMed:17967882). Monomethylation is performed by SET8 (PubMed:15964846). Dimethylation and trimethylation is performed by KMT5B and KMT5C and induces gene silencing (By similarity).
  • Phosphorylated by PAK2 at Ser-48 (H4S47ph). This phosphorylation increases the association of H3.3-H4 with the histone chaperone HIRA, thus promoting nucleosome assembly of H3.3-H4 and inhibiting nucleosome assembly of H3.1-H4.
  • Ubiquitinated by the CUL4-DDB-RBX1 complex in response to ultraviolet irradiation. This may weaken the interaction between histones and DNA and facilitate DNA accessibility to repair proteins. Monoubiquitinated at Lys-92 of histone H4 (H4K91ub1) in response to DNA damage. The exact role of H4K91ub1 in DNA damage response is still unclear but it may function as a licensing signal for additional histone H4 post-translational modifications such as H4 Lys-21 methylation (H4K20me).
  • Sumoylated, which is associated with transcriptional repression.
  • Crotonylation (Kcr) is specifically present in male germ cells and marks testis-specific genes in post-meiotic cells, including X-linked genes that escape sex chromosome inactivation in haploid cells. Crotonylation marks active promoters and enhancers and confers resistance to transcriptional repressors. It is also associated with post-meiotically activated genes on autosomes.
  • Butyrylation of histones marks active promoters and competes with histone acetylation.
  • Glutarylation at Lys-92 (H4K91glu) destabilizes nucleosomes by promoting dissociation of the H2A-H2B dimers from nucleosomes.
  • Ubiquitination at Lys32, Lys60, Lys78, and Lys80
  • Modification sites at PhosphoSitePlus

Other Protein References for H4C11 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for H4C11 Gene

Domains & Families for H4C11 Gene

Gene Families for H4C11 Gene

HGNC:
Human Protein Atlas (HPA):
  • Disease related genes
  • Predicted intracellular proteins

Protein Domains for H4C11 Gene

Suggested Antigen Peptide Sequences for H4C11 Gene

GenScript: Design optimal peptide antigens:
  • Histone H4 (B2R4R0_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P62805

UniProtKB/Swiss-Prot:

H4_HUMAN :
  • Belongs to the histone H4 family.
Family:
  • Belongs to the histone H4 family.
genes like me logo Genes that share domains with H4C11: view

Function for H4C11 Gene

Molecular function for H4C11 Gene

UniProtKB/Swiss-Prot Function:
Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Phenotypes From GWAS Catalog for H4C11 Gene

Gene Ontology (GO) - Molecular Function for H4C11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IBA,TAS 3035717
GO:0003723 RNA binding HDA 22658674
GO:0005515 protein binding IPI 9540062
GO:0019904 protein domain specific binding IPI 22368283
GO:0046982 protein heterodimerization activity IEA --
genes like me logo Genes that share ontologies with H4C11: view
genes like me logo Genes that share phenotypes with H4C11: view

Animal Model Products

CRISPR Products

miRNA for H4C11 Gene

miRTarBase miRNAs that target H4C11

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H4C11

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for H4C11 Gene

Localization for H4C11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for H4C11 Gene

Nucleus. Chromosome.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for H4C11 gene
Compartment Confidence
nucleus 5
extracellular 4
plasma membrane 2
cytoskeleton 2
mitochondrion 2
endoplasmic reticulum 2
cytosol 2
peroxisome 1
endosome 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for H4C11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000228 nuclear chromosome IDA 14718166
GO:0000784 nuclear chromosome, telomeric region HDA 19135898
GO:0000786 nucleosome TAS 3035717
GO:0000788 nuclear nucleosome IDA 20498094
GO:0005576 extracellular region TAS --
genes like me logo Genes that share ontologies with H4C11: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for H4C11 Gene

Pathways & Interactions for H4C11 Gene

PathCards logo

SuperPathways for H4C11 Gene

SuperPathway Contained pathways
1 Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
2 DNA Double-Strand Break Repair
3 Cellular Senescence (REACTOME)
4 Chromosome Maintenance
5 Cell Cycle, Mitotic
.60
genes like me logo Genes that share pathways with H4C11: view

Pathways by source for H4C11 Gene

4 GeneGo (Thomson Reuters) pathways for H4C11 Gene
  • Development Notch Signaling Pathway
  • Development NOTCH1-mediated pathway for NF-KB activity modulation
  • Signal transduction Activin A signaling regulation
  • Transcription Sin3 and NuRD in transcription regulation
2 Qiagen pathways for H4C11 Gene
  • Crosstalk Between CARM1 and ESRs
  • Nuclear Receptor Activation by Vitamin-A
1 GeneTex pathway for H4C11 Gene

Gene Ontology (GO) - Biological Process for H4C11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000183 chromatin silencing at rDNA TAS --
GO:0006303 double-strand break repair via nonhomologous end joining TAS --
GO:0006334 nucleosome assembly IBA,IDA 20498094
GO:0006335 DNA replication-dependent nucleosome assembly IDA 14718166
GO:0006336 DNA replication-independent nucleosome assembly IDA 14718166
genes like me logo Genes that share ontologies with H4C11: view

No data available for SIGNOR curated interactions for H4C11 Gene

Drugs & Compounds for H4C11 Gene

No Compound Related Data Available

Transcripts for H4C11 Gene

mRNA/cDNA for H4C11 Gene

1 REFSEQ mRNAs :
3 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H4C11

Alternative Splicing Database (ASD) splice patterns (SP) for H4C11 Gene

No ASD Table

Relevant External Links for H4C11 Gene

GeneLoc Exon Structure for
H4C11

Expression for H4C11 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for H4C11

SOURCE GeneReport for Unigene cluster for H4C11 Gene:

Hs.278483

Evidence on tissue expression from TISSUES for H4C11 Gene

  • Nervous system(4.6)
  • Blood(4.6)
  • Liver(4.6)
  • Eye(4.5)
  • Intestine(3)
  • Kidney(2.9)
  • Lung(2.8)
  • Heart(2.8)
  • Spleen(2.7)
  • Skin(2.6)
  • Pancreas(2.4)
  • Muscle(2.3)
  • Adrenal gland(2.2)
  • Bone(2.1)
No Expression Related Data Available

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for H4C11 Gene

Orthologs for H4C11 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for H4C11 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia -- 31
  • 100 (a)
OneToMany
Cow
(Bos Taurus)
Mammalia -- 31
  • 100 (a)
ManyToMany
LOC617875 30
  • 86.73 (n)
Mouse
(Mus musculus)
Mammalia Hist1h4j 31
  • 100 (a)
OneToOne
Hist1h4f 30
  • 89.32 (n)
H4c6 17
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 100 (a)
OneToMany
Rat
(Rattus norvegicus)
Mammalia Hist1h4b 30
  • 89.97 (n)
Chicken
(Gallus gallus)
Aves H4-I 31
  • 100 (a)
OneToMany
HIST1H46 30
  • 88.67 (n)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC100495184 30
  • 84.79 (n)
Zebrafish
(Danio rerio)
Actinopterygii HIST1H4H 31
  • 100 (a)
OneToMany
si:ch211-113a14.13 30
  • 80.58 (n)
Fruit Fly
(Drosophila melanogaster)
Insecta His4:CG33873 30
  • 78.32 (n)
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HHF1 33
HHF2 33
Species where no ortholog for H4C11 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • Dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for H4C11 Gene

ENSEMBL:
Gene Tree for H4C11 (if available)
TreeFam:
Gene Tree for H4C11 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for H4C11: view image

Paralogs for H4C11 Gene

Paralogs for H4C11 Gene

genes like me logo Genes that share paralogs with H4C11: view

Variants for H4C11 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for H4C11 Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
770165 Likely Benign: not provided 27,824,385(+) G/A SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for H4C11 Gene

Structural Variations from Database of Genomic Variants (DGV) for H4C11 Gene

Variant ID Type Subtype PubMed ID
esv3608440 CNV loss 21293372

Variation tolerance for H4C11 Gene

Residual Variation Intolerance Score: 63.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.16; 3.58% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for H4C11 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
H4C11

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for H4C11 Gene

Disorders for H4C11 Gene

MalaCards: The human disease database

(14) MalaCards diseases for H4C11 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
b-cell non-hodgkin lymphoma
  • b-cell nhl
alpha-thalassemia/mental retardation syndrome, x-linked
  • atrx
hyperinsulinemic hypoglycemia, familial, 1
  • hhf1
hyperinsulinemic hypoglycemia, familial, 2
  • persistent hyperinsulinemic hypoglycemia of infancy; phhi
alpha-thalassemia
  • thalassemia, alpha-
- elite association - COSMIC cancer census association via MalaCards
Search H4C11 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

H4_HUMAN
  • Note=Chromosomal aberrations involving HISTONE H4 is a cause of B-cell non-Hodgkin lymphomas (B-cell NHL). Translocation t(3;6)(q27;p21), with BCL6. {ECO:0000269 PubMed:12414651}.
genes like me logo Genes that share disorders with H4C11: view

No data available for Genatlas for H4C11 Gene

Publications for H4C11 Gene

  1. The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff WF … Maltais LJ (Genomics 2002) 2 3 4
  2. The human histone gene cluster at the D6S105 locus. (PMID: 9439656) Albig W … Doenecke D (Human genetics 1997) 2 3 4
  3. Protein-DNA interactions in vivo upstream of a cell cycle-regulated human H4 histone gene. (PMID: 3035717) Pauli U … Nick H (Science (New York, N.Y.) 1987) 3 4
  4. The structure of the human histone genes: clustered but not tandemly repeated. (PMID: 6265100) Heintz N … Roeder RG (Cell 1981) 2 3
  5. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3

Products for H4C11 Gene

Sources for H4C11 Gene