H2AC16 Gene (Protein Coding)

H2A Clustered Histone 16

GC06P051804
GIFtS:
29
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 H2AC16 Gene

Aliases for H2AC16 Gene

  • H2A Clustered Histone 16 2 3 5
  • Histone Cluster 1 H2A Family Member L 2 3
  • H2A Histone Family, Member I 2 3
  • Histone Cluster 1, H2al 2 3
  • Histone H2A Type 1 3 4
  • Histone 1, H2al 2 3
  • Histone H2A/Ptl 3 4
  • DJ193B12.9 2 3
  • HIST1H2AL 3 4
  • H2A/I 2 3
  • H2AFI 3 4
  • H2A.1 3 4
  • HIST1H2AG 4
  • HIST1H2AI 4
  • HIST1H2AK 4
  • HIST1H2AM 4
  • H2AC11 3
  • H2AC13 3
  • H2AC15 3
  • H2AC17 3
  • H2AC16 5
  • H2A.I 3
  • H2AFP 4
  • H2AFC 4
  • H2AFD 4
  • H2AFN 4

External Ids for H2AC16 Gene

Previous HGNC Symbols for H2AC16 Gene

  • H2AFI
  • HIST1H2AL

Previous GeneCards Identifiers for H2AC16 Gene

  • GC06P027939
  • GC06P028146
  • GC06P028811
  • GC06P029416

Summaries for H2AC16 Gene

Entrez Gene Summary for H2AC16 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 H2A 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 H2AC16 Gene

H2AC16 (H2A Clustered Histone 16) is a Protein Coding gene. Diseases associated with H2AC16 include Plasma Cell Neoplasm and Myeloma, Multiple. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 and Chromatin organization. An important paralog of this gene is H2AC11.

UniProtKB/Swiss-Prot Summary for H2AC16 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 H2AC16 Gene

Additional gene information for H2AC16 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for H2AC16 Gene

Genomics for H2AC16 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for H2AC16 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
GH06J027862 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 0.7 +3.4 3351 12.7 BCLAF1 SP1 NCOR1 IKZF1 JUND ATF2 POLR2A CEBPA BRCA1 YY1 H1-5 MN298282 piR-37468 piR-45037 piR-57285-002 ZKSCAN3 ZKSCAN8 ZKSCAN4 ZSCAN9 ZNF603P
GH06J027851 Enhancer 0.3 Ensembl 0.4 -13.9 -13916 0.4 ZBTB12 HSALNG0048917 ZNF603P H4C11 H3C12 H2BC13 H2BC12 lnc-HIST1H2AL-1 H2AC15 H2AC16 H2BC15
GH06J027854 Enhancer 0.3 Ensembl 0.4 -10.6 -10616 1 SPI1 HSALNG0048919 lnc-HIST1H2AL-1 H2AC16 H2AC15 H2BC15
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around H2AC16 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for H2AC16

Genomic Locations for H2AC16 Gene

Latest Assembly
chr6:27,865,317-27,865,798
(GRCh38/hg38)
Size:
482 bases
Orientation:
Plus strand

Previous Assembly
chr6:27,833,095-27,833,576
(GRCh37/hg19 by Entrez Gene)
Size:
482 bases
Orientation:
Plus strand

Genomic View for H2AC16 Gene

Genes around H2AC16 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
H2AC16 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for H2AC16 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for H2AC16 Gene

Proteins for H2AC16 Gene

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  • Protein details for H2AC16 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P0C0S8-H2A1_HUMAN
    Recommended name:
    Histone H2A type 1
    Protein Accession:
    P0C0S8
    Secondary Accessions:
    • P02261
    • Q2M1R2
    • Q76PA6

    Protein attributes for H2AC16 Gene

    Size:
    130 amino acids
    Molecular mass:
    14091 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.

    Three dimensional structures from OCA and Proteopedia for H2AC16 Gene

neXtProt entry for H2AC16 Gene

Post-translational modifications for H2AC16 Gene

  • Deiminated on Arg-4 in granulocytes upon calcium entry.
  • Monoubiquitination of Lys-120 (H2AK119Ub) by RING1, TRIM37 and RNF2/RING2 complex gives a specific tag for epigenetic transcriptional repression and participates in X chromosome inactivation of female mammals. It is involved in the initiation of both imprinted and random X inactivation. Ubiquitinated H2A is enriched in inactive X chromosome chromatin. Ubiquitination of H2A functions downstream of methylation of 'Lys-27' of histone H3 (H3K27me). H2AK119Ub by RNF2/RING2 can also be induced by ultraviolet and may be involved in DNA repair. Monoubiquitination of Lys-120 (H2AK119Ub) by TRIM37 may promote transformation of cells in a number of breast cancers (PubMed:25470042). Following DNA double-strand breaks (DSBs), it is ubiquitinated through 'Lys-63' linkage of ubiquitin moieties by the E2 ligase UBE2N and the E3 ligases RNF8 and RNF168, leading to the recruitment of repair proteins to sites of DNA damage. Ubiquitination at Lys-14 and Lys-16 (H2AK13Ub and H2AK15Ub, respectively) in response to DNA damage is initiated by RNF168 that mediates monoubiquitination at these 2 sites, and 'Lys-63'-linked ubiquitin are then conjugated to monoubiquitin; RNF8 is able to extend 'Lys-63'-linked ubiquitin chains in vitro. Deubiquitinated by USP51 at Lys-14 and Lys-16 (H2AK13Ub and H2AK15Ub, respectively) after damaged DNA is repaired (PubMed:27083998). H2AK119Ub and ionizing radiation-induced 'Lys-63'-linked ubiquitination (H2AK13Ub and H2AK15Ub) are distinct events.
  • Phosphorylation on Ser-2 (H2AS1ph) is enhanced during mitosis. Phosphorylation on Ser-2 by RPS6KA5/MSK1 directly represses transcription. Acetylation of H3 inhibits Ser-2 phosphorylation by RPS6KA5/MSK1. Phosphorylation at Thr-121 (H2AT120ph) by DCAF1 is present in the regulatory region of many tumor suppresor genes and down-regulates their transcription.
  • Symmetric dimethylation on Arg-4 by the PRDM1/PRMT5 complex may play a crucial role in the germ-cell lineage.
  • Glutamine methylation at Gln-105 (H2AQ104me) by FBL is specifically dedicated to polymerase I. It is present at 35S ribosomal DNA locus and impairs binding of the FACT complex (PubMed:24352239).
  • 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.
  • Ubiquitination at Lys16
  • Modification sites at PhosphoSitePlus

Other Protein References for H2AC16 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for H2AC16 Gene

Domains & Families for H2AC16 Gene

Gene Families for H2AC16 Gene

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

Protein Domains for H2AC16 Gene

InterPro:
Blocks:
  • Histone H2A

Graphical View of Domain Structure for InterPro Entry

P0C0S8

UniProtKB/Swiss-Prot:

H2A1_HUMAN :
  • Belongs to the histone H2A family.
Family:
  • Belongs to the histone H2A family.
genes like me logo Genes that share domains with H2AC16: view

No data available for Suggested Antigen Peptide Sequences for H2AC16 Gene

Function for H2AC16 Gene

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Molecular function for H2AC16 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 H2AC16 Gene

Gene Ontology (GO) - Molecular Function for H2AC16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IBA 21873635
GO:0005515 protein binding IPI 15161933
GO:0019899 enzyme binding IPI 17980597
GO:0046982 protein heterodimerization activity IEA --
genes like me logo Genes that share ontologies with H2AC16: view
genes like me logo Genes that share phenotypes with H2AC16: view

miRNA for H2AC16 Gene

miRTarBase miRNAs that target H2AC16

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H2AC16

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for H2AC16 Gene

Localization for H2AC16 Gene

Subcellular locations from UniProtKB/Swiss-Prot for H2AC16 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 H2AC16 gene
Compartment Confidence
nucleus 5
extracellular 4
plasma membrane 1
cytoskeleton 1
mitochondrion 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for H2AC16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000785 chromatin IBA --
GO:0000786 nucleosome IEA --
GO:0005634 nucleus IEA,IDA 16319397
GO:0005694 chromosome IEA --
GO:0070062 extracellular exosome HDA 20458337
genes like me logo Genes that share ontologies with H2AC16: view

Pathways & Interactions for H2AC16 Gene

genes like me logo Genes that share pathways with H2AC16: view

Pathways by source for H2AC16 Gene

1 BioSystems pathway for H2AC16 Gene
1 GeneGo (Thomson Reuters) pathway for H2AC16 Gene
  • Signal transduction Activin A signaling regulation

Gene Ontology (GO) - Biological Process for H2AC16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006342 chromatin silencing IBA 21873635
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with H2AC16: view

No data available for SIGNOR curated interactions for H2AC16 Gene

Drugs & Compounds for H2AC16 Gene

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No Compound Related Data Available

Transcripts for H2AC16 Gene

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mRNA/cDNA for H2AC16 Gene

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

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H2AC16

Alternative Splicing Database (ASD) splice patterns (SP) for H2AC16 Gene

No ASD Table

Relevant External Links for H2AC16 Gene

GeneLoc Exon Structure for
H2AC16

Expression for H2AC16 Gene

Products:

  1. Primer products for research

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for H2AC16

SOURCE GeneReport for Unigene cluster for H2AC16 Gene:

Hs.233568

Evidence on tissue expression from TISSUES for H2AC16 Gene

  • Intestine(4.4)
  • Spleen(4.2)
genes like me logo Genes that share expression patterns with H2AC16: view

Primer products for research

No data available for mRNA expression in normal human tissues , 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 H2AC16 Gene

Orthologs for H2AC16 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for H2AC16 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia LOC471894 29
  • 91.54 (n)
Cow
(Bos Taurus)
 Mammalia LOC524176 29
  • 91.28 (n)
Mouse
(Mus musculus)
 Mammalia Hist1h2ae 29
  • 89.74 (n)
H2ac8 16
Rat
(Rattus norvegicus)
 Mammalia Hist1h2ah 29
  • 86.92 (n)
Soybean
(Glycine max)
 eudicotyledons Gma.5443 29
Species where no ortholog for H2AC16 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)
  • 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)
  • Fruit Fly (Drosophila melanogaster)
  • 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 (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)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)
  • Zebrafish (Danio rerio)

Evolution for H2AC16 Gene

ENSEMBL:
Gene Tree for H2AC16 (if available)
TreeFam:
Gene Tree for H2AC16 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for H2AC16: view image
Alliance of Genome Resources:
Additional Orthologs for H2AC16

Paralogs for H2AC16 Gene

Variants for H2AC16 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for H2AC16 Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
rs890521687 Likely Pathogenic: Multiple myeloma 27,865,398(+) C/G
NM_003511.3(H2AC16):c.44C>G (p.Ala15Gly) 		MISSENSE

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for H2AC16 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for H2AC16 Gene

Variant ID Type Subtype PubMed ID
nsv601208 CNV loss 21841781
nsv965699 CNV duplication 23825009

Variation tolerance for H2AC16 Gene

Residual Variation Intolerance Score: 58.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.49; 10.68% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for H2AC16 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
H2AC16
Leiden Open Variation Database (LOVD)
H2AC16

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for H2AC16 Gene

Disorders for H2AC16 Gene

MalaCards: The human disease database

(3) MalaCards diseases for H2AC16 Gene - From: CVR and COP

Disorder Aliases PubMed IDs
plasma cell neoplasm
  • plasma cell dyscrasia
myeloma, multiple
  • multiple myeloma, susceptibility to
fanconi anemia, complementation group a
  • fanca
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for H2AC16

Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with H2AC16: view

No data available for UniProtKB/Swiss-Prot and Genatlas for H2AC16 Gene

Publications for H2AC16 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. Precise characterization of human histones in the H2A gene family by top down mass spectrometry. (PMID: 16457589) Boyne MT … Kelleher NL (Journal of proteome research 2006) 3 4
  4. The human H2A and H2B histone gene complement. (PMID: 10064132) Albig W … Doenecke D (Biological chemistry 1999) 3 4
  5. Characterization of the H1.5 gene completes the set of human H1 subtype genes. (PMID: 9031620) Albig W … Doenecke D (Gene 1997) 2 3

ExternalLinks

View latest publications for H2AC16 gene in Mastermind

Products for H2AC16 Gene

Sources for H2AC16 Gene