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Aliases for HIST1H2BN Gene

Aliases for HIST1H2BN Gene

  • Histone Cluster 1 H2B Family Member N 2 3 5
  • H2B Histone Family, Member D 2 3
  • Histone Cluster 1, H2bn 2 3
  • Histone 1, H2bn 2 3
  • Histone H2B.D 3 4
  • H2BFD 3 4
  • H2B/D 3 4
  • Histone H2B Type 1-N 3

External Ids for HIST1H2BN Gene

Previous HGNC Symbols for HIST1H2BN Gene

  • H2BFD

Previous GeneCards Identifiers for HIST1H2BN Gene

  • GC06P027864
  • GC06P027914
  • GC06P027913
  • GC06P027805
  • GC06P027614

Summaries for HIST1H2BN Gene

Entrez Gene Summary for HIST1H2BN 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 H2B 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 HIST1H2BN Gene

HIST1H2BN (Histone Cluster 1 H2B Family Member N) is a Protein Coding gene. Among its related pathways are Mitotic Prophase and Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3. GO annotations related to this gene include sequence-specific DNA binding and protein heterodimerization activity. An important paralog of this gene is HIST1H2BI.

UniProtKB/Swiss-Prot for HIST1H2BN 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 HIST1H2BN Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HIST1H2BN Gene

Genomics for HIST1H2BN Gene

Regulatory Elements for HIST1H2BN Gene

Enhancers for HIST1H2BN Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06F027887 0.7 FANTOM5 ENCODE 15 +55.7 55721 11.9 CREB3L1 ZFP64 DMAP1 YY1 ZNF143 NFYC TBX21 SSRP1 ZNF610 RCOR2 ZNF603P ZKSCAN3 ZKSCAN8 ZKSCAN4 ZSCAN23 HIST1H4K HIST1H3H HIST1H2BN HIST1H2BL ZNF204P
GH06F027834 1.2 FANTOM5 ENCODE 14.2 -0.5 -468 6.4 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 SP3 NFYC TBX21 MEF2D ZNF610 ZKSCAN3 ZNF391 ZKSCAN4 ZKSCAN8 HNRNPA1P1 HIST1H2BPS2 OR2B2 CD83P1 LOC442172 GPX5
GH06F027161 1.1 Ensembl ENCODE 10 -675.6 -675627 1.1 HDGF ATF1 PKNOX1 ARNT FEZF1 ZNF2 GTF3C2 ZNF766 GATA2 FOS ABT1 ZKSCAN8 HMGN4 HIST1H2AK HIST1H2BN HIST1H4K PRSS16 GC06P027175 TRH-GTG1-5
GH06F027805 1.1 FANTOM5 ENCODE 4.1 -25.6 -25646 12.7 CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 NFYC TBX21 MEF2D SSRP1 ZNF603P ZNF391 ZNF204P ZNF192P1 ENSG00000271755 ZKSCAN3 ZKSCAN4 ZKSCAN8 ZSCAN23 PGBD1
GH06F027791 1.6 FANTOM5 Ensembl ENCODE 1.5 -44.8 -44838 3.7 PKNOX1 ARNT CREB3L1 ARID4B SIN3A ZNF2 SLC30A9 ZNF143 FOS KLF13 ZKSCAN3 ZKSCAN4 ZKSCAN8 ZNF603P ZSCAN9 ZNF204P ZSCAN26 TOB2P1 HIST1H2AM ZNF391
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around HIST1H2BN on UCSC Golden Path with GeneCards custom track

Promoters for HIST1H2BN Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001214446 340 4601 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 SP3 NFYC TBX21 MEF2D ZNF610

Genomic Location for HIST1H2BN Gene

Chromosome:
6
Start:
27,837,760 bp from pter
End:
27,865,798 bp from pter
Size:
28,039 bases
Orientation:
Plus strand

Genomic View for HIST1H2BN Gene

Genes around HIST1H2BN on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HIST1H2BN Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HIST1H2BN Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HIST1H2BN Gene

Proteins for HIST1H2BN Gene

  • Protein details for HIST1H2BN Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99877-H2B1N_HUMAN
    Recommended name:
    Histone H2B type 1-N
    Protein Accession:
    Q99877
    Secondary Accessions:
    • B2R5L4
    • Q494S8
    • Q96FB7

    Protein attributes for HIST1H2BN Gene

    Size:
    126 amino acids
    Molecular mass:
    13922 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.

neXtProt entry for HIST1H2BN Gene

Post-translational modifications for HIST1H2BN Gene

  • 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.
  • GlcNAcylation at Ser-113 promotes monoubiquitination of Lys-121. It fluctuates in response to extracellular glucose, and associates with transcribed genes (By similarity).
  • Monoubiquitination at Lys-35 (H2BK34Ub) by the MSL1/MSL2 dimer is required for histone H3 Lys-4 (H3K4me) and Lys-79 (H3K79me) methylation and transcription activation at specific gene loci, such as HOXA9 and MEIS1 loci. Similarly, monoubiquitination at Lys-121 (H2BK120Ub) by the RNF20/40 complex gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 Lys-4 and Lys-79 methylation. It also functions cooperatively with the FACT dimer to stimulate elongation by RNA polymerase II. H2BK120Ub also acts as a regulator of mRNA splicing: deubiquitination by USP49 is required for efficient cotranscriptional splicing of a large set of exons.
  • Phosphorylation at Ser-37 (H2BS36ph) by AMPK in response to stress promotes transcription (By similarity). Phosphorylated on Ser-15 (H2BS14ph) by STK4/MST1 during apoptosis; which facilitates apoptotic chromatin condensation. Also phosphorylated on Ser-15 in response to DNA double strand breaks (DSBs), and in correlation with somatic hypermutation and immunoglobulin class-switch recombination.
  • Ubiquitination at Lys 121
  • Glycosylation at Ser 113
  • Modification sites at PhosphoSitePlus

Other Protein References for HIST1H2BN Gene

No data available for DME Specific Peptides for HIST1H2BN Gene

Domains & Families for HIST1H2BN Gene

Gene Families for HIST1H2BN Gene

Protein Domains for HIST1H2BN Gene

Suggested Antigen Peptide Sequences for HIST1H2BN Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q99877

UniProtKB/Swiss-Prot:

H2B1N_HUMAN :
  • Belongs to the histone H2B family.
Family:
  • Belongs to the histone H2B family.
genes like me logo Genes that share domains with HIST1H2BN: view

Function for HIST1H2BN Gene

Molecular function for HIST1H2BN 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 HIST1H2BN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding NAS,IBA 9439656
GO:0046982 protein heterodimerization activity IEA --
genes like me logo Genes that share ontologies with HIST1H2BN: view
genes like me logo Genes that share phenotypes with HIST1H2BN: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HIST1H2BN Gene

Localization for HIST1H2BN Gene

Subcellular locations from UniProtKB/Swiss-Prot for HIST1H2BN Gene

Nucleus. Chromosome.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HIST1H2BN Gene COMPARTMENTS Subcellular localization image for HIST1H2BN gene
Compartment Confidence
extracellular 5
nucleus 5

Gene Ontology (GO) - Cellular Components for HIST1H2BN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000786 nucleosome NAS 9439656
GO:0000788 nuclear nucleosome IBA --
GO:0005634 nucleus IDA 16319397
GO:0005654 nucleoplasm TAS --
GO:0005694 chromosome IEA --
genes like me logo Genes that share ontologies with HIST1H2BN: view

Pathways & Interactions for HIST1H2BN Gene

SuperPathways for HIST1H2BN 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
4 Chromosome Maintenance
5 Cell Cycle, Mitotic
.60
genes like me logo Genes that share pathways with HIST1H2BN: view

Gene Ontology (GO) - Biological Process for HIST1H2BN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006334 nucleosome assembly NAS 9439656
genes like me logo Genes that share ontologies with HIST1H2BN: view

No data available for SIGNOR curated interactions for HIST1H2BN Gene

Transcripts for HIST1H2BN Gene

mRNA/cDNA for HIST1H2BN Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HIST1H2BN Gene

No ASD Table

Relevant External Links for HIST1H2BN Gene

GeneLoc Exon Structure for
HIST1H2BN
ECgene alternative splicing isoforms for
HIST1H2BN

Expression for HIST1H2BN Gene

mRNA expression in normal human tissues for HIST1H2BN Gene

Protein differential expression in normal tissues from HIPED for HIST1H2BN Gene

This gene is overexpressed in Saliva (57.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HIST1H2BN Gene



Protein tissue co-expression partners for HIST1H2BN Gene

NURSA nuclear receptor signaling pathways regulating expression of HIST1H2BN Gene:

HIST1H2BN

SOURCE GeneReport for Unigene cluster for HIST1H2BN Gene:

Hs.673851
genes like me logo Genes that share expression patterns with HIST1H2BN: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for HIST1H2BN Gene

Orthologs for HIST1H2BN Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for HIST1H2BN Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia H2B 35
  • 100 (a)
OneToOne
LOC787269 34
  • 91.53 (n)
chimpanzee
(Pan troglodytes)
Mammalia HIST1H2BN 35
  • 100 (a)
OneToOne
LOC462508 34
  • 99.47 (n)
dog
(Canis familiaris)
Mammalia LOC478743 34
  • 93.65 (n)
-- 35
  • 92 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Hist1h2bm 34 16
  • 93.39 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 92 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Hist1h2bd 34
  • 90.48 (n)
barley
(Hordeum vulgare)
Liliopsida Hv.12831 34
Species where no ortholog for HIST1H2BN 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)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for HIST1H2BN Gene

ENSEMBL:
Gene Tree for HIST1H2BN (if available)
TreeFam:
Gene Tree for HIST1H2BN (if available)

Paralogs for HIST1H2BN Gene

Variants for HIST1H2BN Gene

Sequence variations from dbSNP and Humsavar for HIST1H2BN Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs111967279 -- 27,839,077(+) CTCGG(C/T)CCACA upstream-variant-2KB, utr-variant-3-prime
rs112586220 -- 27,839,049(+) CCCGC(C/T)CACCG upstream-variant-2KB, utr-variant-3-prime
rs13212651 -- 27,839,207(+) TAGAA(A/G)CTAAT downstream-variant-500B, upstream-variant-2KB
rs138689538 -- 27,838,777(+) CTACT(C/T)CGTGT upstream-variant-2KB, reference, missense
rs139301244 -- 27,838,179(+) ACACC(A/G)CCGCC upstream-variant-2KB, reference, missense

Structural Variations from Database of Genomic Variants (DGV) for HIST1H2BN Gene

Variant ID Type Subtype PubMed ID
esv3608441 CNV gain 21293372
nsv969367 CNV duplication 23825009

Variation tolerance for HIST1H2BN Gene

Residual Variation Intolerance Score: 30.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.43; 9.38% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HIST1H2BN Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HIST1H2BN

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HIST1H2BN Gene

Disorders for HIST1H2BN Gene

Relevant External Links for HIST1H2BN

Genetic Association Database (GAD)
HIST1H2BN
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HIST1H2BN

No disorders were found for HIST1H2BN Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HIST1H2BN Gene

Publications for HIST1H2BN Gene

  1. The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff W.F. … Maltais L.J. (Genomics 2002) 2 3 4 64
  2. The human histone gene cluster at the D6S105 locus. (PMID: 9439656) Albig W. … Doenecke D. (Hum. Genet. 1997) 2 3 4 64
  3. Characterization of histones H2A and H2B variants and their post- translational modifications by mass spectrometry. (PMID: 16319397) Bonenfant D. … van Oostrum J. (Mol. Cell. Proteomics 2006) 3 4 64
  4. Quantitative proteomic analysis of post-translational modifications of human histones. (PMID: 16627869) Beck H.C. … Jensen O.N. (Mol. Cell. Proteomics 2006) 3 4 64
  5. Histone H2B monoubiquitination functions cooperatively with FACT to regulate elongation by RNA polymerase II. (PMID: 16713563) Pavri R. … Reinberg D. (Cell 2006) 3 4 64

Products for HIST1H2BN Gene

Sources for HIST1H2BN Gene

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