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Aliases for HIST1H2BM Gene

Aliases for HIST1H2BM Gene

  • Histone Cluster 1 H2B Family Member M 2 3 5
  • H2B Histone Family, Member E 2 3
  • Histone Cluster 1, H2bm 2 3
  • Histone 1, H2bm 2 3
  • Histone H2B.E 3 4
  • H2BFE 3 4
  • H2B/E 3 4
  • Histone H2B Type 1-M 3
  • 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 H2B Family Member M) 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 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

Enhancers for HIST1H2BM 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
GH06F027834 1.6 FANTOM5 ENCODE 10.3 +22.2 22249 6.4 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 SP3 NFYC TBX21 MEF2D ZNF610 ZKSCAN3 ZNF391 ZKSCAN4 ZKSCAN8 HNRNPA1P1 HIST1H2BPS2 OR2B2 CD83P1 LOC442172 GPX5
GH06F027887 1.6 FANTOM5 ENCODE 5.4 +78.4 78437 11.9 CREB3L1 ZFP64 DMAP1 YY1 ZNF143 NFYC TBX21 SSRP1 ZNF610 RCOR2 ZNF603P ZKSCAN3 ZKSCAN8 ZKSCAN4 ZSCAN23 HIST1H4K HIST1H3H HIST1H2BN HIST1H2BL ZNF204P
GH06F027805 1.5 FANTOM5 ENCODE 3.6 -2.9 -2930 12.7 CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 NFYC TBX21 MEF2D SSRP1 ZNF603P ZNF391 ZNF204P ZNF192P1 ENSG00000271755 ZKSCAN3 ZKSCAN4 ZKSCAN8 ZSCAN23 PGBD1
GH06F027819 1 Ensembl ENCODE 0.8 +4.8 4779 1.6 CTCF ZNF654 ZMYM3 TRIM22 RAD21 ZNF316 ATF3 PBX2 IKZF1 SMC3 ZNF603P HIST1H2BM HIST1H4J
GH06F027821 1.2 ENCODE 0.4 +8.9 8862 4.6 CREB3L1 DMAP1 YY1 ZNF143 SP3 TBX21 MEF2D RCOR2 NBN KDM1A ZKSCAN8 ZNF391 ZNF204P ZKSCAN3 ENSG00000271755 HIST1H3J ZSCAN23 HIST1H1B HIST1H2BO HIST1H3I
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HIST1H2BM on UCSC Golden Path with GeneCards custom track

Promoters for HIST1H2BM Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001879511 -644 2401 HDGF ATF1 ARID4B SIN3A ZNF48 BRCA1 SLC30A9 FOS NFYC ZHX2

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

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.

Gene Ontology (GO) - Molecular Function for HIST1H2BM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding NAS 9439656
GO:0046982 protein heterodimerization activity IEA --
genes like me logo Genes that share ontologies with HIST1H2BM: view
genes like me logo Genes that share phenotypes with HIST1H2BM: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , 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
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 HIST1H2BM gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 4

Gene Ontology (GO) - Cellular Components for HIST1H2BM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000786 nucleosome NAS 9439656
GO:0000788 nuclear nucleosome IBA --
GO:0005634 nucleus IEA,IDA 16319397
GO:0005654 nucleoplasm TAS --
GO:0005694 chromosome IEA --
genes like me logo Genes that share ontologies with HIST1H2BM: view

Pathways & Interactions for HIST1H2BM Gene

SuperPathways for HIST1H2BM 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 HIST1H2BM: view

Interacting Proteins for HIST1H2BM Gene

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

Gene Ontology (GO) - Biological Process for HIST1H2BM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006334 nucleosome assembly NAS 9439656
genes like me logo Genes that share ontologies with HIST1H2BM: view

No data available for SIGNOR curated interactions for HIST1H2BM Gene

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:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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 from GTEx, Illumina, BioGPS, and SAGE 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



Protein tissue co-expression partners for HIST1H2BM Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of HIST1H2BM Gene:

HIST1H2BM

SOURCE GeneReport for Unigene cluster for HIST1H2BM Gene:

Hs.182432
genes like me logo Genes that share expression patterns with HIST1H2BM: view

Primer 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
mouse
(Mus musculus)
Mammalia Hist1h2bn 34 16
  • 88.36 (n)
dog
(Canis familiaris)
Mammalia LOC100683643 34
  • 87.6 (n)
chimpanzee
(Pan troglodytes)
Mammalia LOC748505 34
  • 85.71 (n)
cow
(Bos Taurus)
Mammalia HIST1H2BB 34
  • 84.39 (n)
Species where no ortholog for HIST1H2BM 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)
  • 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

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
rs111440895 -- 27,813,213(+) AATAG(C/T)CTTTG upstream-variant-2KB
rs111605323 -- 27,814,104(+) GCCTG(A/G)CCACC downstream-variant-500B, upstream-variant-2KB
rs113119182 -- 27,815,695(+) CGGGT(C/T)CAAGC downstream-variant-500B, upstream-variant-2KB
rs138112845 -- 27,814,742(+) ACATG(A/G)CAAAA upstream-variant-2KB

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

Variant ID Type Subtype PubMed ID
nsv970094 CNV duplication 23825009
nsv830618 CNV gain 17160897
nsv1017057 CNV gain 25217958

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

SNPedia medical, phenotypic, and genealogical associations of SNPs for
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 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. Gene-specific characterization of human histone H2B by electron capture dissociation. (PMID: 16457587) Siuti N. … Pesavento J.J. (J. Proteome Res. 2006) 3 4 64
  4. 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
  5. Inhibition of core histones acetylation by carcinogenic nickel(II). (PMID: 16283522) Golebiowski F. … Kasprzak K.S. (Mol. Cell. Biochem. 2005) 3 4 64

Products for HIST1H2BM Gene

Sources for HIST1H2BM Gene

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