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Aliases for HIST3H3 Gene

Aliases for HIST3H3 Gene

  • Histone Cluster 3, H3 2 3
  • H3FT 3 4 6
  • H3t 3 4 6
  • H3 Histone Family, Member T 2 3
  • Histone 3, H3 2 3
  • H3/G 3 4
  • H3/T 3 4
  • Histone H3.1t 3
  • H3.4 3

External Ids for HIST3H3 Gene

Previous Symbols for HIST3H3 Gene

  • H3FT

Summaries for HIST3H3 Gene

Entrez Gene Summary for HIST3H3 Gene

  • Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Nucleosomes consist of approximately 146 bp of DNA wrapped around a histone octamer composed of pairs of each of the four core histones (H2A, H2B, H3, and H4). The chromatin fiber is further compacted through the interaction of a linker histone, H1, with the DNA between the nucleosomes to form higher order chromatin structures. This gene is intronless and encodes a member of the histone H3 family. Transcripts from this gene lack polyA tails; instead, they contain a palindromic termination element. This gene is located separately from the other H3 genes that are in the histone gene cluster on chromosome 6p22-p21.3. [provided by RefSeq, Jul 2008]

GeneCards Summary for HIST3H3 Gene

HIST3H3 (Histone Cluster 3, H3) is a Protein Coding gene. Among its related pathways are ERK Signaling and TGF-Beta Pathway. GO annotations related to this gene include protein heterodimerization activity. An important paralog of this gene is HIST2H3A.

UniProtKB/Swiss-Prot for HIST3H3 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 HIST3H3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HIST3H3 Gene

Genomics for HIST3H3 Gene

Genomic Location for HIST3H3 Gene

Start:
228,424,845 bp from pter
End:
228,425,325 bp from pter
Size:
481 bases
Orientation:
Minus strand

Genomic View for HIST3H3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HIST3H3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HIST3H3 Gene

Regulatory Elements for HIST3H3 Gene

Proteins for HIST3H3 Gene

  • Protein details for HIST3H3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q16695-H31T_HUMAN
    Recommended name:
    Histone H3.1t
    Protein Accession:
    Q16695
    Secondary Accessions:
    • B2R5K3
    • Q6FGU4

    Protein attributes for HIST3H3 Gene

    Size:
    136 amino acids
    Molecular mass:
    15508 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 HIST3H3 Gene

neXtProt entry for HIST3H3 Gene

Proteomics data for HIST3H3 Gene at MOPED

Post-translational modifications for HIST3H3 Gene

  • Acetylation is generally linked to gene activation. Acetylation on Lys-10 (H3K9ac) impairs methylation at Arg-9 (H3R8me2s). Acetylation on Lys-19 (H3K18ac) and Lys-24 (H3K24ac) favors methylation at Arg-18 (H3R17me). Acetylation at Lys-123 (H3K122ac) by EP300/p300 plays a central role in chromatin structure: localizes at the surface of the histone octamer and stimulates transcription, possibly by promoting nucleosome instability (By similarity).
  • Asymmetric dimethylation at Arg-18 (H3R17me2a) by CARM1 is linked to gene activation. Symmetric dimethylation at Arg-9 (H3R8me2s) by PRMT5 is linked to gene repression. Asymmetric dimethylation at Arg-3 (H3R2me2a) by PRMT6 is linked to gene repression and is mutually exclusive with H3 Lys-5 methylation (H3K4me2 and H3K4me3). H3R2me2a is present at the 3 of genes regardless of their transcription state and is enriched on inactive promoters, while it is absent on active promoters (By similarity).
  • Citrullination at Arg-9 (H3R8ci) and/or Arg-18 (H3R17ci) by PADI4 impairs methylation and represses transcription.
  • Lysine deamination at Lys-5 (H3K4all) to form allysine is mediated by LOXL2. Allysine formation by LOXL2 only takes place on H3K4me3 and results in gene repression (By similarity).
  • Methylation at Lys-5 (H3K4me), Lys-37 (H3K36me) and Lys-80 (H3K79me) are linked to gene activation. Methylation at Lys-5 (H3K4me) facilitates subsequent acetylation of H3 and H4. Methylation at Lys-80 (H3K79me) is associated with DNA double-strand break (DSB) responses and is a specific target for TP53BP1. Methylation at Lys-10 (H3K9me) and Lys-28 (H3K27me) are linked to gene repression. Methylation at Lys-10 (H3K9me) is a specific target for HP1 proteins (CBX1, CBX3 and CBX5) and prevents subsequent phosphorylation at Ser-11 (H3S10ph) and acetylation of H3 and H4. Methylation at Lys-5 (H3K4me) and Lys-80 (H3K79me) require preliminary monoubiquitination of H2B at Lys-120. Methylation at Lys-10 (H3K9me) and Lys-28 (H3K27me) are enriched in inactive X chromosome chromatin. Monomethylation at Lys-57 (H3K56me1) by EHMT2/G9A in G1 phase promotes interaction with PCNA and is required for DNA replication (By similarity).
  • Phosphorylated at Thr-4 (H3T3ph) by GSG2/haspin during prophase and dephosphorylated during anaphase. Phosphorylation at Ser-11 (H3S10ph) by AURKB is crucial for chromosome condensation and cell-cycle progression during mitosis and meiosis. In addition phosphorylation at Ser-11 (H3S10ph) by RPS6KA4 and RPS6KA5 is important during interphase because it enables the transcription of genes following external stimulation, like mitogens, stress, growth factors or UV irradiation and result in the activation of genes, such as c-fos and c-jun. Phosphorylation at Ser-11 (H3S10ph), which is linked to gene activation, prevents methylation at Lys-10 (H3K9me) but facilitates acetylation of H3 and H4. Phosphorylation at Ser-11 (H3S10ph) by AURKB mediates the dissociation of HP1 proteins (CBX1, CBX3 and CBX5) from heterochromatin. Phosphorylation at Ser-11 (H3S10ph) is also an essential regulatory mechanism for neoplastic cell transformation. Phosphorylated at Ser-29 (H3S28ph) by MLTK isoform 1, RPS6KA5 or AURKB during mitosis or upon ultraviolet B irradiation. Phosphorylation at Thr-7 (H3T6ph) by PRKCB is a specific tag for epigenetic transcriptional activation that prevents demethylation of Lys-5 (H3K4me) by LSD1/KDM1A. At centromeres, specifically phosphorylated at Thr-12 (H3T11ph) from prophase to early anaphase, by DAPK3 and PKN1. Phosphorylation at Thr-12 (H3T11ph) by PKN1 is a specific tag for epigenetic transcriptional activation that promotes demethylation of Lys-10 (H3K9me) by KDM4C/JMJD2C. Phosphorylation at Tyr-42 (H3Y41ph) by JAK2 promotes exclusion of CBX5 (HP1 alpha) from chromatin (By similarity).
  • Ubiquitinated.
  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys57, Lys65, Lys80, and Lys123

Other Protein References for HIST3H3 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for HIST3H3 Gene

Domains for HIST3H3 Gene

Gene Families for HIST3H3 Gene

HGNC:
  • HIST :Histones / Replication-dependent

Protein Domains for HIST3H3 Gene

UniProtKB/Swiss-Prot:

H31T_HUMAN
Family:
  • Belongs to the histone H3 family.:
    • Q16695
genes like me logo Genes that share domains with HIST3H3: view

Function for HIST3H3 Gene

Molecular function for HIST3H3 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

Gene Ontology (GO) - Molecular Function for HIST3H3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 17537733
GO:0042393 histone binding IPI 20498094
GO:0046982 protein heterodimerization activity IEA --
genes like me logo Genes that share ontologies with HIST3H3: view

miRNA for HIST3H3 Gene

miRTarBase miRNAs that target HIST3H3

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for HIST3H3 Gene

Localization for HIST3H3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HIST3H3 Gene

Nucleus. Chromosome.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HIST3H3 Gene COMPARTMENTS Subcellular localization image for HIST3H3 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for HIST3H3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000786 nucleosome IDA 25615412
GO:0000788 nuclear nucleosome IDA 20498094
GO:0005634 nucleus IDA 21630459
GO:0005654 nucleoplasm TAS --
GO:0070062 extracellular exosome IDA 20458337
genes like me logo Genes that share ontologies with HIST3H3: view

Pathways for HIST3H3 Gene

genes like me logo Genes that share pathways with HIST3H3: view

Gene Ontology (GO) - Biological Process for HIST3H3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000723 telomere maintenance TAS --
GO:0006334 nucleosome assembly IMP 20498094
GO:0032460 negative regulation of protein oligomerization IMP 20498094
GO:0051290 protein heterotetramerization IDA 20498094
genes like me logo Genes that share ontologies with HIST3H3: view

Transcripts for HIST3H3 Gene

mRNA/cDNA for HIST3H3 Gene

(1) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(3) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for HIST3H3 Gene

Histone cluster 3, H3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HIST3H3 Gene

No ASD Table

Relevant External Links for HIST3H3 Gene

GeneLoc Exon Structure for
HIST3H3
ECgene alternative splicing isoforms for
HIST3H3

Expression for HIST3H3 Gene

mRNA expression in normal human tissues for HIST3H3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HIST3H3 Gene

This gene is overexpressed in Testis (26.8).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for HIST3H3 Gene

SOURCE GeneReport for Unigene cluster for HIST3H3 Gene Hs.248171

mRNA Expression by UniProt/SwissProt for HIST3H3 Gene

Q16695-H31T_HUMAN
Tissue specificity: Expressed in testicular cells
genes like me logo Genes that share expressions with HIST3H3: view

Orthologs for HIST3H3 Gene

This gene was present in the common ancestor of animals.

Orthologs for HIST3H3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 37
  • 97 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia -- 37
  • 97 (a)
ManyToMany
LOC518318 36
  • 81.13 (n)
  • 95.59 (a)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 37
  • 92 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 94 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100493041 36
  • 82.84 (n)
  • 96.32 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC570703 36
  • 81.13 (n)
  • 96.32 (a)
fruit fly
(Drosophila melanogaster)
Insecta His3:CG33860 36
  • 80.39 (n)
  • 96.32 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 90 (a)
ManyToMany
-- 37
  • 90 (a)
ManyToMany
Species with no ortholog for HIST3H3:
  • A. gosspyii yeast (Ashbya 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 HIST3H3 Gene

ENSEMBL:
Gene Tree for HIST3H3 (if available)
TreeFam:
Gene Tree for HIST3H3 (if available)

Paralogs for HIST3H3 Gene

Selected SIMAP similar genes for HIST3H3 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with HIST3H3: view

Variants for HIST3H3 Gene

Sequence variations from dbSNP and Humsavar for HIST3H3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs473316 -- 228,426,422(+) CGGCT(C/T)AGATG upstream-variant-2KB
rs1188473 -- 228,424,743(+) GATTC(A/G)CCAGC downstream-variant-500B
rs1188474 -- 228,425,351(+) CGCGG(C/T)GTCCT upstream-variant-2KB
rs1188475 -- 228,425,770(+) ctgct(C/T)actgc upstream-variant-2KB
rs1188476 -- 228,425,922(+) ggctg(A/G)tctcg upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HIST3H3 Gene

Variant ID Type Subtype PubMed ID
esv32853 CNV Gain 17666407
nsv826908 CNV Gain 20364138
nsv523935 CNV Loss 19592680
nsv873255 CNV Loss 21882294
nsv827019 CNV Loss 20364138
nsv873270 CNV Loss 21882294
nsv517545 CNV Loss 19592680
dgv542n71 CNV Loss 21882294
nsv508697 CNV Loss 20534489

Relevant External Links for HIST3H3 Gene

HapMap Linkage Disequilibrium report
HIST3H3
Human Gene Mutation Database (HGMD)
HIST3H3

Disorders for HIST3H3 Gene

Relevant External Links for HIST3H3

Genetic Association Database (GAD)
HIST3H3
genes like me logo Genes that share disorders with HIST3H3: view

No data available for UniProtKB/Swiss-Prot for HIST3H3 Gene

Publications for HIST3H3 Gene

  1. A solitary human H3 histone gene on chromosome 1. (PMID: 8834248) Albig W. … Doenecke D. (Hum. Genet. 1996) 2 3 4
  2. The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff W.F. … Maltais L.J. (Genomics 2002) 2 3 4
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4
  4. Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers. (PMID: 20850016) Vermeulen M. … Mann M. (Cell 2010) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for HIST3H3 Gene

Sources for HIST3H3 Gene

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