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 H4C5 Gene

Aliases for H4C5 Gene

  • H4 Clustered Histone 5 2 3
  • Histone Cluster 1 H4 Family Member E 2 3 5
  • H4 Histone Family, Member J 2 3
  • Histone Cluster 1, H4e 2 3
  • Histone 1, H4e 2 3
  • HIST1H4E 3 5
  • H4/J 3 4
  • H4FJ 3 4
  • Histone H4 3
  • HIST2H4 4
  • H4/A 4
  • H4/B 4
  • H4/C 4
  • H4/D 4
  • H4/E 4
  • H4/G 4
  • H4/H 4
  • H4/I 4
  • H4/K 4
  • H4/M 4
  • H4/N 4
  • H4/O 4
  • H4F2 4
  • H4FA 4
  • H4FB 4
  • H4FC 4
  • H4FD 4
  • H4FE 4
  • H4FG 4
  • H4FH 4
  • H4FI 4
  • H4FK 4
  • H4FM 4
  • H4FN 4
  • H4FO 4

External Ids for H4C5 Gene

Previous HGNC Symbols for H4C5 Gene

  • H4FJ
  • HIST1H4E

Summaries for H4C5 Gene

Entrez Gene Summary for H4C5 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 large histone gene cluster on chromosome 6. [provided by RefSeq, Aug 2015]

GeneCards Summary for H4C5 Gene

H4C5 (H4 Clustered Histone 5) is a Protein Coding gene. Among its related pathways are DNA Double-Strand Break Repair and Cellular Senescence (REACTOME). An important paralog of this gene is H4C11.

UniProtKB/Swiss-Prot Summary for H4C5 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.

Gene Wiki entry for H4C5 Gene

Additional gene information for H4C5 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for H4C5 Gene

Genomics for H4C5 Gene

GeneHancer (GH) Regulatory Elements for H4C5 Gene

Promoters and enhancers for H4C5 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
GH06J026120 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 1.9 -80.2 -80208 8.5 PPP1R10 GTF3C2 SIN3A ZBTB40 SP1 SREBF1 ZBTB6 LCORL FOXA1 RBPJ H2AC6 H2BC4 piR-40096 piR-31751 piR-50446 ABT1 BTN2A3P HMGN4 BTN2A1 BTN2A2
GH06J026193 Promoter/Enhancer 2.1 Ensembl ENCODE CraniofacialAtlas dbSUPER 0.6 -3.8 -3760 14.6 PPP1R10 E2F8 SIN3A ZBTB40 SP1 CTCF SREBF1 ZBTB6 FOXA1 MLX ENSG00000217275 H2AC7 H2BC7 H3C4 ENSG00000282988 RPS10P1 ABT1 HMGN4 BTN2A3P BTN2A1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around H4C5 on UCSC Golden Path with GeneCards custom track

Genomic Locations for H4C5 Gene

Genomic Locations for H4C5 Gene
chr6:26,204,552-26,206,038
(GRCh38/hg38)
Size:
1,487 bases
Orientation:
Plus strand
chr6:26,204,858-26,206,266
(GRCh37/hg19)
Size:
1,409 bases
Orientation:
Plus strand

Genomic View for H4C5 Gene

Genes around H4C5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
H4C5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for H4C5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for H4C5 Gene

Proteins for H4C5 Gene

  • Protein details for H4C5 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 H4C5 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; Positions=3; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for H4C5 Gene

neXtProt entry for H4C5 Gene

Post-translational modifications for H4C5 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). Monomethylation is performed by SET8. Trimethylation is performed by KMT5B and KMT5C and induces gene silencing.
  • 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.
  • Ubiquitination at Lys32, Lys60, Lys78, and Lys80
  • Modification sites at PhosphoSitePlus

Other Protein References for H4C5 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for H4C5 Gene

Domains & Families for H4C5 Gene

Gene Families for H4C5 Gene

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

Protein Domains for H4C5 Gene

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 H4C5: view

No data available for Suggested Antigen Peptide Sequences for H4C5 Gene

Function for H4C5 Gene

Molecular function for H4C5 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 H4C5 Gene

Gene Ontology (GO) - Molecular Function for H4C5 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 H4C5: view
genes like me logo Genes that share phenotypes with H4C5: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H4C5

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for H4C5 Gene

Localization for H4C5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for H4C5 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 H4C5 gene
Compartment Confidence
nucleus 5
extracellular 4
plasma membrane 1
cytoskeleton 1
mitochondrion 1
cytosol 1

Gene Ontology (GO) - Cellular Components for H4C5 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 H4C5: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for H4C5 Gene

Pathways & Interactions for H4C5 Gene

PathCards logo

SuperPathways for H4C5 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 H4C5: view

Gene Ontology (GO) - Biological Process for H4C5 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 IDA,IBA 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 H4C5: view

No data available for SIGNOR curated interactions for H4C5 Gene

Drugs & Compounds for H4C5 Gene

No Compound Related Data Available

Transcripts for H4C5 Gene

mRNA/cDNA for H4C5 Gene

(1) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(22) Selected AceView cDNA sequences:
(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 H4C5

Alternative Splicing Database (ASD) splice patterns (SP) for H4C5 Gene

No ASD Table

Relevant External Links for H4C5 Gene

GeneLoc Exon Structure for
H4C5
ECgene alternative splicing isoforms for
H4C5

Expression for H4C5 Gene

NURSA nuclear receptor signaling pathways regulating expression of H4C5 Gene:

H4C5

SOURCE GeneReport for Unigene cluster for H4C5 Gene:

Hs.662174

Evidence on tissue expression from TISSUES for H4C5 Gene

  • Nervous system(4.6)
  • Liver(4.5)
  • Eye(4.2)
  • Intestine(2.8)
  • Lung(2.7)
  • Blood(2.4)
  • Kidney(2.4)
  • Heart(2.2)
No Expression Related Data Available

Primer Products

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 H4C5 Gene

Orthologs for H4C5 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for H4C5 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia LOC517138 32
  • 83.82 (n)
chimpanzee
(Pan troglodytes)
Mammalia LOC472228 32
  • 80.91 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC101733182 32
  • 80.91 (n)
zebrafish
(Danio rerio)
Actinopterygii LOC564610 32
  • 83.17 (n)
wufe37d09 32
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012885 32
  • 82.2 (n)
fruit fly
(Drosophila melanogaster)
Insecta His4:CG33907 32
  • 80.26 (n)
worm
(Caenorhabditis elegans)
Secernentea his-56 32
  • 75.08 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G07660 32
  • 76.38 (n)
rice
(Oryza sativa)
Liliopsida Os03g0119900 32
  • 78.96 (n)
Species where no ortholog for H4C5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • 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)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for H4C5 Gene

ENSEMBL:
Gene Tree for H4C5 (if available)
TreeFam:
Gene Tree for H4C5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for H4C5: view image

Paralogs for H4C5 Gene

Paralogs for H4C5 Gene

genes like me logo Genes that share paralogs with H4C5: view

Variants for H4C5 Gene

Sequence variations from dbSNP and Humsavar for H4C5 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000103615 -- 26,205,130(+) T/C downstream_transcript_variant
rs1000290963 -- 26,205,237(+) G/C downstream_transcript_variant
rs1000842672 -- 26,204,511(+) G/A upstream_transcript_variant
rs1000899401 -- 26,204,728(+) G/A coding_sequence_variant, synonymous_variant
rs1001577482 -- 26,205,177(+) C/T downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for H4C5 Gene

Variant ID Type Subtype PubMed ID
dgv375n21 CNV loss 19592680
dgv5926n100 CNV gain 25217958
esv3608397 CNV loss 21293372
esv3608398 CNV loss 21293372
esv3608399 CNV gain 21293372
nsv1021294 CNV loss 25217958
nsv1023453 CNV gain 25217958
nsv428137 CNV loss 18775914

Variation tolerance for H4C5 Gene

Residual Variation Intolerance Score: 27% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.25; 5.57% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for H4C5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
H4C5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for H4C5 Gene

Disorders for H4C5 Gene

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}.

Additional Disease Information for H4C5

No disorders were found for H4C5 Gene.

No data available for MalaCards and Genatlas for H4C5 Gene

Publications for H4C5 Gene

  1. The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff WF … Maltais LJ (Genomics 2002) 2 3 4 56
  2. Human histone gene organization: nonregular arrangement within a large cluster. (PMID: 9119399) Albig W … Doenecke D (Genomics 1997) 2 3 4 56
  3. The human histone gene cluster at the D6S105 locus. (PMID: 9439656) Albig W … Doenecke D (Human genetics 1997) 3 4 56
  4. 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 56
  5. VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. (PMID: 29507755) Yue Y … Liu J (Cell discovery 2018) 3 56

Products for H4C5 Gene

Sources for H4C5 Gene