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Aliases for HIST1H2BM Gene

Aliases for HIST1H2BM Gene

  • Histone Cluster 1, H2bm 2 3 5
  • H2B Histone Family, Member E 2 3
  • Histone 1, H2bm 2 3
  • Histone H2B.E 3 4
  • H2BFE 3 4
  • H2B/E 3 4
  • DJ160A22.3 3

External Ids for HIST1H2BM Gene

Previous HGNC Symbols for HIST1H2BM Gene

  • H2BFE

Previous GeneCards Identifiers for HIST1H2BM Gene

  • GC06P027841
  • GC06P027892
  • GC06P027893
  • GC06P027894
  • GC06P027782
  • GC06P027591

Summaries for HIST1H2BM Gene

Entrez Gene Summary for HIST1H2BM 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 HIST1H2BM Gene

HIST1H2BM (Histone Cluster 1, H2bm) is a Protein Coding gene. Among its related pathways are Gene Expression and Signaling by GPCR. GO annotations related to this gene include sequence-specific DNA binding and protein heterodimerization activity. An important paralog of this gene is HIST1H2BH.

UniProtKB/Swiss-Prot for HIST1H2BM 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 HIST1H2BM Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HIST1H2BM Gene

Genomics for HIST1H2BM Gene

Regulatory Elements for HIST1H2BM Gene

Promoters for HIST1H2BM Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around HIST1H2BM on UCSC Golden Path with GeneCards custom track

Genomic Location for HIST1H2BM Gene

Chromosome:
6
Start:
27,815,044 bp from pter
End:
27,815,489 bp from pter
Size:
446 bases
Orientation:
Plus strand

Genomic View for HIST1H2BM Gene

Genes around HIST1H2BM on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HIST1H2BM Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HIST1H2BM Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HIST1H2BM Gene

Proteins for HIST1H2BM Gene

  • Protein details for HIST1H2BM Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99879-H2B1M_HUMAN
    Recommended name:
    Histone H2B type 1-M
    Protein Accession:
    Q99879
    Secondary Accessions:
    • Q6NWQ3

    Protein attributes for HIST1H2BM Gene

    Size:
    126 amino acids
    Molecular mass:
    13989 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 HIST1H2BM Gene

Proteomics data for HIST1H2BM Gene at MOPED

Post-translational modifications for HIST1H2BM 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 HIST1H2BM Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HIST1H2BM Gene

Domains & Families for HIST1H2BM Gene

Gene Families for HIST1H2BM Gene

Protein Domains for HIST1H2BM Gene

Suggested Antigen Peptide Sequences for HIST1H2BM Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q99879

UniProtKB/Swiss-Prot:

H2B1M_HUMAN :
  • Belongs to the histone H2B family.
Family:
  • Belongs to the histone H2B family.
genes like me logo Genes that share domains with HIST1H2BM: view

Function for HIST1H2BM Gene

Molecular function for HIST1H2BM 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.
genes like me logo Genes that share phenotypes with HIST1H2BM: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for HIST1H2BM Gene

Localization for HIST1H2BM Gene

Subcellular locations from UniProtKB/Swiss-Prot for HIST1H2BM Gene

Nucleus. Chromosome.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HIST1H2BM Gene COMPARTMENTS Subcellular localization image for HIST1H2BM gene
Compartment Confidence
extracellular 5
nucleus 5
cytoskeleton 1
cytosol 1

Gene Ontology (GO) - Cellular Components for HIST1H2BM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA --
GO:0070062 extracellular exosome IDA 20458337
genes like me logo Genes that share ontologies with HIST1H2BM: view

Pathways & Interactions for HIST1H2BM Gene

SuperPathways for HIST1H2BM Gene

Superpath 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 Packaging Of Telomere Ends
genes like me logo Genes that share pathways with HIST1H2BM: view

Pathways by source for HIST1H2BM Gene

Interacting Proteins for HIST1H2BM Gene

Selected Interacting proteins: Q99879-H2B1M_HUMAN for HIST1H2BM Gene via I2D

Gene Ontology (GO) - Biological Process for HIST1H2BM Gene

None

No data available for SIGNOR curated interactions for HIST1H2BM Gene

Drugs & Compounds for HIST1H2BM Gene

No Compound Related Data Available

Transcripts for HIST1H2BM Gene

mRNA/cDNA for HIST1H2BM Gene

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

Unigene Clusters for HIST1H2BM Gene

Histone cluster 1, H2bm:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for HIST1H2BM Gene

No ASD Table

Relevant External Links for HIST1H2BM Gene

GeneLoc Exon Structure for
HIST1H2BM
ECgene alternative splicing isoforms for
HIST1H2BM

Expression for HIST1H2BM Gene

mRNA expression in normal human tissues for HIST1H2BM Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HIST1H2BM Gene

This gene is overexpressed in Whole Blood (x7.9), Brain - Spinal cord (cervical c-1) (x4.8), and Vagina (x4.4).

Protein differential expression in normal tissues from HIPED for HIST1H2BM Gene

This gene is overexpressed in Saliva (57.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for HIST1H2BM Gene



SOURCE GeneReport for Unigene cluster for HIST1H2BM Gene Hs.182432

genes like me logo Genes that share expression patterns with HIST1H2BM: view

Protein tissue co-expression partners for HIST1H2BM Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA Expression by UniProt/SwissProt for HIST1H2BM Gene

Orthologs for HIST1H2BM Gene

This gene was present in the common ancestor of mammals.

Orthologs for HIST1H2BM Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia HIST1H2BB 35
  • 84.39 (n)
  • 96.03 (a)
dog
(Canis familiaris)
Mammalia LOC100683643 35
  • 87.6 (n)
  • 94.21 (a)
mouse
(Mus musculus)
Mammalia Hist1h2bn 35
  • 88.36 (n)
  • 96.03 (a)
Hist1h2bn 16
chimpanzee
(Pan troglodytes)
Mammalia LOC748505 35
  • 85.71 (n)
  • 96.83 (a)
Species with no ortholog for HIST1H2BM:
  • 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)
  • 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)
  • rat (Rattus norvegicus)
  • 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 HIST1H2BM Gene

ENSEMBL:
Gene Tree for HIST1H2BM (if available)
TreeFam:
Gene Tree for HIST1H2BM (if available)

Paralogs for HIST1H2BM Gene

genes like me logo Genes that share paralogs with HIST1H2BM: view

Variants for HIST1H2BM Gene

Sequence variations from dbSNP and Humsavar for HIST1H2BM Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
VAR_036205 A colorectal cancer sample
rs6911912 -- 27,813,052(+) ggctg(C/T)gttgg upstream-variant-2KB
rs58677321 -- 27,813,200(+) TCACT(A/C)TTCTC upstream-variant-2KB
rs76442140 -- 27,813,154(+) CAAAA(A/C)AAAAA upstream-variant-2KB
rs111440895 -- 27,813,213(+) AATAG(C/T)CTTTG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HIST1H2BM Gene

Variant ID Type Subtype PubMed ID
nsv830618 CNV Gain 17160897
nsv883512 CNV Gain 21882294

Variation tolerance for HIST1H2BM Gene

Residual Variation Intolerance Score: 43.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.85; 17.75% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HIST1H2BM Gene

HapMap Linkage Disequilibrium report
HIST1H2BM

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HIST1H2BM Gene

Disorders for HIST1H2BM Gene

Relevant External Links for HIST1H2BM

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HIST1H2BM

No disorders were found for HIST1H2BM Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HIST1H2BM Gene

Publications for HIST1H2BM Gene

  1. The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff W.F. … Maltais L.J. (Genomics 2002) 2 3 4 67
  2. The human histone gene cluster at the D6S105 locus. (PMID: 9439656) Albig W. … Doenecke D. (Hum. Genet. 1997) 2 3
  3. Regulation of error-prone translesion synthesis by Spartan/C1orf124. (PMID: 23254330) Kim M.S. … Machida Y.J. (Nucleic Acids Res. 2013) 3
  4. The intracellular interactome of tetraspanin-enriched microdomains reveals their function as sorting machineries toward exosomes. (PMID: 23463506) Perez-Hernandez D. … YA!A+ez-MA^ M. (J. Biol. Chem. 2013) 3
  5. Host cell interactome of HIV-1 Rev includes RNA helicases involved in multiple facets of virus production. (PMID: 22174317) Naji S. … Gerace L. (Mol. Cell Proteomics 2012) 3

Products for HIST1H2BM Gene

Sources for HIST1H2BM Gene

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