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 H4C1 Gene

Aliases for H4C1 Gene

  • H4 Clustered Histone 1 2 3
  • Histone Cluster 1 H4 Family Member A 2 3 5
  • H4 Histone Family, Member A 2 3
  • Histone Cluster 1, H4a 2 3
  • Histone 1, H4a 2 3
  • HIST1H4A 3 5
  • H4FA 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/J 4
  • H4/K 4
  • H4/M 4
  • H4/N 4
  • H4/O 4
  • H4F2 4
  • H4FB 4
  • H4FC 4
  • H4FD 4
  • H4FE 4
  • H4FG 4
  • H4FH 4
  • H4FI 4
  • H4FJ 4
  • H4FK 4
  • H4FM 4
  • H4FN 4
  • H4FO 4

External Ids for H4C1 Gene

Previous HGNC Symbols for H4C1 Gene

  • H4FA
  • HIST1H4A

Summaries for H4C1 Gene

Entrez Gene Summary for H4C1 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 H4C1 Gene

H4C1 (H4 Clustered Histone 1) is a Protein Coding gene. Diseases associated with H4C1 include B-Cell Non-Hodgkin Lymphoma. 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 H4C1 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 H4C1 Gene

Additional gene information for H4C1 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for H4C1 Gene

Genomics for H4C1 Gene

GeneHancer (GH) Regulatory Elements for H4C1 Gene

Promoters and enhancers for H4C1 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
GH06J025536 Enhancer 1.1 FANTOM5 Ensembl 4.6 -485.9 -485878 2.4 SMARCE1 CC2D1A TEAD4 ZKSCAN8 ZNF148 GTF2F1 BACH1 CBFA2T2 SMARCA4 CDC5L ENSG00000216718 HCG11 CARMIL1 CMAHP ENSG00000219681 SCGN ENSG00000272462 BTN3A2 H4C1 H3C2
GH06J026120 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 1.8 +102.7 102665 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
GH06J026015 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 0.6 +3.8 3761 20.5 PPP1R10 GTF3C2 E2F8 SIN3A ZNF24 SP1 ZBTB40 CTCF ZBTB6 MLX H4C2 H2AC4 H3C2 ABT1 BTN2A3P HMGN4 BTN2A1 ZNF322 BTN2A2 BTN3A2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around H4C1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for H4C1 Gene

Genomic Locations for H4C1 Gene
chr6:26,021,679-26,022,050
(GRCh38/hg38)
Size:
372 bases
Orientation:
Plus strand
chr6:26,021,907-26,022,278
(GRCh37/hg19)
Size:
372 bases
Orientation:
Plus strand

Genomic View for H4C1 Gene

Genes around H4C1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
H4C1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for H4C1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for H4C1 Gene

Proteins for H4C1 Gene

  • Protein details for H4C1 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 H4C1 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 H4C1 Gene

neXtProt entry for H4C1 Gene

Post-translational modifications for H4C1 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 H4C1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for H4C1 Gene

Domains & Families for H4C1 Gene

Gene Families for H4C1 Gene

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

Protein Domains for H4C1 Gene

Suggested Antigen Peptide Sequences for H4C1 Gene

GenScript: Design optimal peptide antigens:
  • Histone H2A (F5H4B2_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 H4C1: view

Function for H4C1 Gene

Molecular function for H4C1 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 H4C1 Gene

Gene Ontology (GO) - Molecular Function for H4C1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding TAS,IBA 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 H4C1: view
genes like me logo Genes that share phenotypes with H4C1: view

Animal Model Products

CRISPR Products

miRNA for H4C1 Gene

miRTarBase miRNAs that target H4C1

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H4C1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for H4C1 Gene

Localization for H4C1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for H4C1 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 H4C1 gene
Compartment Confidence
nucleus 5
extracellular 4
plasma membrane 1
cytoskeleton 1
mitochondrion 1
cytosol 1

Gene Ontology (GO) - Cellular Components for H4C1 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 H4C1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for H4C1 Gene

Pathways & Interactions for H4C1 Gene

PathCards logo

SuperPathways for H4C1 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 H4C1: view

SIGNOR curated interactions for H4C1 Gene

Is inactivated by:
Other effect:

Gene Ontology (GO) - Biological Process for H4C1 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 H4C1: view

Drugs & Compounds for H4C1 Gene

No Compound Related Data Available

Transcripts for H4C1 Gene

mRNA/cDNA for H4C1 Gene

(1) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(24) 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 H4C1

Alternative Splicing Database (ASD) splice patterns (SP) for H4C1 Gene

No ASD Table

Relevant External Links for H4C1 Gene

GeneLoc Exon Structure for
H4C1
ECgene alternative splicing isoforms for
H4C1

Expression for H4C1 Gene

NURSA nuclear receptor signaling pathways regulating expression of H4C1 Gene:

H4C1

SOURCE GeneReport for Unigene cluster for H4C1 Gene:

Hs.248178

Evidence on tissue expression from TISSUES for H4C1 Gene

  • Liver(4.5)
  • Nervous system(4.4)
  • Eye(4.2)
  • Blood(2.4)
  • Lung(2.2)
  • Intestine(2.1)
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 H4C1 Gene

Orthologs for H4C1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for H4C1 Gene

Organism Taxonomy Gene Similarity Type Details
mouse
(Mus musculus)
Mammalia Hist1h4d 32
  • 86.73 (n)
H4c4 17
rat
(Rattus norvegicus)
Mammalia Hist1h4m 32
  • 85.76 (n)
chimpanzee
(Pan troglodytes)
Mammalia LOC748532 32
  • 84.14 (n)
cow
(Bos Taurus)
Mammalia LOC516742 32
  • 83.17 (n)
chicken
(Gallus gallus)
Aves HIST1H46L5 32
  • 87.06 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100495257 32
  • 80.26 (n)
zebrafish
(Danio rerio)
Actinopterygii LOC100005308 32
  • 80.26 (n)
fruit fly
(Drosophila melanogaster)
Insecta His4:CG33887 32
  • 80.58 (n)
worm
(Caenorhabditis elegans)
Secernentea his-67 32
  • 76.7 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.2281 32
rice
(Oryza sativa)
Liliopsida Os07g0549900 32
  • 83.5 (n)
Species where no ortholog for H4C1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for H4C1 Gene

ENSEMBL:
Gene Tree for H4C1 (if available)
TreeFam:
Gene Tree for H4C1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for H4C1: view image

Paralogs for H4C1 Gene

Paralogs for H4C1 Gene

genes like me logo Genes that share paralogs with H4C1: view

Variants for H4C1 Gene

Sequence variations from dbSNP and Humsavar for H4C1 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs747622981 A breast cancer sample p.Glu64Gln
rs1001751186 -- 26,021,009(+) G/A upstream_transcript_variant
rs1003023837 -- 26,021,387(+) A/G/T upstream_transcript_variant
rs1004059208 -- 26,021,135(+) G/T upstream_transcript_variant
rs1004310398 -- 26,021,224(+) C/T upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for H4C1 Gene

Variant ID Type Subtype PubMed ID
dgv5926n100 CNV gain 25217958
nsv1023453 CNV gain 25217958
nsv428137 CNV loss 18775914
nsv509122 CNV insertion 20534489

Variation tolerance for H4C1 Gene

Residual Variation Intolerance Score: 70.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.26; 5.81% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for H4C1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
H4C1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for H4C1 Gene

Disorders for H4C1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for H4C1 Gene - From: GeneCards

Disorder Aliases PubMed IDs
b-cell non-hodgkin lymphoma
  • b-cell nhl
- elite association - COSMIC cancer census association via MalaCards
Search H4C1 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}.

Additional Disease Information for H4C1

genes like me logo Genes that share disorders with H4C1: view

No data available for Genatlas for H4C1 Gene

Publications for H4C1 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. BBAP monoubiquitylates histone H4 at lysine 91 and selectively modulates the DNA damage response. (PMID: 19818714) Yan Q … Shipp MA (Molecular cell 2009) 3 4 56
  4. SET8 recognizes the sequence RHRK20VLRDN within the N terminus of histone H4 and mono-methylates lysine 20. (PMID: 15964846) Yin Y … Zhu G (The Journal of biological chemistry 2005) 3 4 56
  5. Histone sumoylation is associated with transcriptional repression. (PMID: 14578449) Shiio Y … Eisenman RN (Proceedings of the National Academy of Sciences of the United States of America 2003) 3 4 56

Products for H4C1 Gene

Sources for H4C1 Gene