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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 H3-3B Gene
Aliases for H3-3B Gene
External Ids for H3-3B Gene
- HGNC: 4765
- NCBI Entrez Gene: 3021
- Ensembl: ENSG00000132475
- OMIM®: 601058
- UniProtKB/Swiss-Prot: P84243
Previous HGNC Symbols for H3-3B Gene
- H3F3B
Previous GeneCards Identifiers for H3-3B Gene
- GC17M075778
- GC17M075780
- GC17M075782
Summaries for H3-3B 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 contains introns and its mRNA is polyadenylated, unlike most histone genes. The protein encoded by this gene is a replication-independent histone that is a member of the histone H3 family. Pseudogenes of this gene have been identified on the X chromosome, and on chromosomes 5, 13 and 17. [provided by RefSeq, Oct 2015]
GeneCards Summary for H3-3B Gene
H3-3B (H3.3 Histone B) is a Protein Coding gene. Diseases associated with H3-3B include Chondroblastoma and Clear Cell Chondrosarcoma. Among its related pathways are Cellular Senescence (REACTOME) and Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3. An important paralog of this gene is H3-3A.
UniProtKB/Swiss-Prot Summary for H3-3B Gene
-
Variant histone H3 which replaces conventional H3 in a wide range of nucleosomes in active genes. Constitutes the predominant form of histone H3 in non-dividing cells and is incorporated into chromatin independently of DNA synthesis. Deposited at sites of nucleosomal displacement throughout transcribed genes, suggesting that it represents an epigenetic imprint of transcriptionally active chromatin. 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.
Additional gene information for H3-3B Gene
No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for H3-3B Gene
Genomics for H3-3B Gene
GeneHancer (GH) Regulatory Elements Pubs
Promoters and enhancers for H3-3B Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association
Download GeneHancer data from 2017 publication |
Request up-to-date GeneHancer data (full dataset)
GeneHancers around H3-3B on the GeneHancer Hub at the UCSC Golden Path
Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for H3-3B
Genomic Locations for H3-3B Gene
Latest Assembly
- chr17:75,776,434-75,785,893
- (GRCh38/hg38)
- Size:
- 9,460 bases
- Orientation:
- Minus strand
Previous Assembly
- chr17:73,772,515-73,775,860
- (GRCh37/hg19 by Entrez Gene)
- Size:
- 3,346 bases
- Orientation:
- Minus strand
Genomic View for H3-3B Gene
Genes around H3-3B on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 17q25.1 by HGNC
- 17q25.1 by Entrez Gene
- 17q25.1 by Ensembl
H3-3B Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for H3-3B Gene
Proteins for H3-3B Gene
-
Protein details for H3-3B Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- P84243-H33_HUMAN
- Recommended name:
- Histone H3.3
- Protein Accession:
- P84243
- P06351
- P33155
- Q5VV55
- Q5VV56
- Q66I33
- Q9V3W4
Protein attributes for H3-3B Gene
- Size:
- 136 amino acids
- Molecular mass:
- 15328 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. Interacts with HIRA, a chaperone required for its incorporation into nucleosomes. Interacts with ZMYND11; when trimethylated at 'Lys-36' (H3.3K36me3).
Post-translational modifications for H3-3B 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.
- Citrullination at Arg-9 (H3R8ci) and/or Arg-18 (H3R17ci) by PADI4 impairs methylation and represses transcription.
- 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.
- Specifically enriched in modifications associated with active chromatin such as methylation at Lys-5 (H3K4me), Lys-37 and Lys-80. 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), which are linked to gene repression, are underrepresented. 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.
- Phosphorylated at Thr-4 (H3T3ph) by 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 MAP3K20 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. Phosphorylation on Ser-32 (H3S31ph) is specific to regions bordering centromeres in metaphase chromosomes.
- Ubiquitinated. Monoubiquitinated by RAG1 in lymphoid cells, monoubiquitination is required for V(D)J recombination (By similarity).
- 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.
- 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.
- Butyrylation of histones marks active promoters and competes with histone acetylation. It is present during late spermatogenesis.
- Succinylation at Lys-80 (H3K79succ) by KAT2A takes place with a maximum frequency around the transcription start sites of genes (PubMed:29211711). It gives a specific tag for epigenetic transcription activation (PubMed:29211711). Desuccinylation at Lys-123 (H3K122succ) by SIRT7 in response to DNA damage promotes chromatin condensation and double-strand breaks (DSBs) repair (PubMed:27436229).
- Serine ADP-ribosylation constitutes the primary form of ADP-ribosylation of proteins in response to DNA damage (PubMed:29480802). Serine ADP-ribosylation at Ser-11 (H3S10ADPr) is mutually exclusive with phosphorylation at Ser-11 (H3S10ph) and impairs acetylation at Lys-10 (H3K9ac) (PubMed:30257210).
-
Ubiquitination at Lys116
- NX_P84243 (NX_P84243-1)
- Modification sites at PhosphoSitePlus
Other Protein References for H3-3B Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibodies for research
- Novus Biologicals Antibodies for H3-3B
-
Abcam antibodies for H3-3B
- Invitrogen Antibodies for H3-3B (AFLGC-H3F3B, AFLGC-H3-3B)
-
Custom Antibody ServicesProSci Antibodies for H3-3B
Protein products for research
-
OriGene Purified Proteins for H3-3B
- Search Origene for MassSpec and Protein Over-expression Lysates for H3-3B
- Origene Custom Protein Services for H3-3B
- antibodies-online: Show 5 available H3F3B Proteins ranked by validation data
- Compare Top H3F3B Proteins
-
Quality Products:
-
Abcam proteins for H3-3B
Assay products for research
- antibodies-online: Show 4 available H3F3B Elisa Kits ranked by validation data
- Compare Top H3F3B Elisa Kits
-
Quality Products:
No data available for DME Specific Peptides for H3-3B Gene
Domains & Families for H3-3B Gene
Gene Families for H3-3B Gene
- HGNC:
- Human Protein Atlas (HPA):
-
- Cancer-related genes
- Disease related genes
- Predicted intracellular proteins
Protein Domains for H3-3B Gene
- InterPro:
Suggested Antigen Peptide Sequences for H3-3B Gene
- GenScript: Design optimal peptide antigens:
-
- cDNA, FLJ92171, Homo sapiens H3 histone, family 3A (H3F3A), mRNA (B2R4P9_HUMAN)
- Histone H3.3 (H33_HUMAN)
Graphical View of Domain Structure for InterPro Entry
P84243UniProtKB/Swiss-Prot:
H33_HUMAN :- Specific interaction of trimethylated form at 'Lys-36' (H3.3K36me3) with ZMYND11 is mediated by the encapsulation of Ser-32 residue with a composite pocket formed by the tandem bromo-PWWP domains.
- Belongs to the histone H3 family.
- Domain:
-
- Specific interaction of trimethylated form at 'Lys-36' (H3.3K36me3) with ZMYND11 is mediated by the encapsulation of Ser-32 residue with a composite pocket formed by the tandem bromo-PWWP domains.
- Family:
-
- Belongs to the histone H3 family.
Function for H3-3B Gene
Molecular function for H3-3B Gene
- UniProtKB/Swiss-Prot Function:
- Variant histone H3 which replaces conventional H3 in a wide range of nucleosomes in active genes. Constitutes the predominant form of histone H3 in non-dividing cells and is incorporated into chromatin independently of DNA synthesis. Deposited at sites of nucleosomal displacement throughout transcribed genes, suggesting that it represents an epigenetic imprint of transcriptionally active chromatin. 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 H3-3B Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0000978 | RNA polymerase II proximal promoter sequence-specific DNA binding | IDA | 19633671 |
| GO:0000979 | RNA polymerase II core promoter sequence-specific DNA binding | IDA | 19633671 |
| GO:0003677 | DNA binding | IEA | -- |
| GO:0005515 | protein binding | IPI | 19494831 |
| GO:0031492 | nucleosomal DNA binding | IDA | 19633671 |
Phenotypes for H3-3B Gene
- MGI mutant phenotypes for H3-3B:
- inferred from 8 alleles
- GenomeRNAi human phenotypes for H3-3B:
-
- Increased vaccinia virus (VACV) infection
- Decreased viability
- no effect
- Synthetic lethal with MLN4924 (a NAE inhibitor)
- Increased viability with MLN4924 (a NAE inhibitor)
- Decreased vaccinia virus (VACV) infection
- Decreased ionizing radiation sensitivity
- Negative genetic interaction between KRASG13D/+ and KRAS+/-
- Decreased vesicular stomatitis virus (VSV) infection
Animal Models for H3-3B Gene
Animal Models for research
- Taconic Biosciences: Generate A Custom CRISPR Mouse Model For Your Study
CRISPR products for research
- Applied Biological Materials (abm): CRISPR Clones for H3-3B - Starting at $85 >
- * H3-3B CRISPR as ready-to-use vector or virus: Non-viral | Lenti- | Adeno- | AAV- | siRNA - Browse All
- * Cas9 Nucleases, Nickases, Null Mutants, and GFP tag also available.
-
OriGene CRISPR knockouts for H3-3B
- Search GeneCopoeia for CRISPR/Cas9 clones, lentivirus and AAV products for H3-3B
miRNA for H3-3B Gene
- miRTarBase miRNAs that target H3-3B
-
- hsa-miR-16-5p (MIRT000852)
- hsa-miR-15a-5p (MIRT000853)
- hsa-miR-1-3p (MIRT002794)
- hsa-miR-181a-5p (MIRT025106)
- hsa-miR-34a-5p (MIRT025214)
- hsa-miR-32-5p (MIRT028264)
- hsa-miR-22-3p (MIRT030659)
- hsa-miR-1236-3p (MIRT036251)
- hsa-miR-93-3p (MIRT038830)
- hsa-miR-652-3p (MIRT039558)
- hsa-miR-324-5p (MIRT043082)
- hsa-miR-4729 (MIRT198074)
- hsa-miR-520g-5p (MIRT251760)
- hsa-miR-216a-3p (MIRT289134)
- hsa-miR-128-3p (MIRT289135)
- hsa-miR-3681-3p (MIRT289140)
- hsa-miR-5003-3p (MIRT345820)
- hsa-miR-486-5p (MIRT438848)
- hsa-miR-527 (MIRT475897)
- hsa-miR-518a-5p (MIRT475898)
- hsa-miR-548aw (MIRT475899)
- hsa-miR-466 (MIRT475900)
- hsa-miR-1468-3p (MIRT475901)
- hsa-miR-548x-5p (MIRT475902)
- hsa-miR-548g-5p (MIRT475903)
- hsa-miR-548f-5p (MIRT475904)
- hsa-miR-548aj-5p (MIRT475905)
- hsa-miR-4725-5p (MIRT475906)
- hsa-miR-3614-5p (MIRT475907)
- hsa-miR-890 (MIRT475908)
- hsa-miR-4643 (MIRT475909)
- hsa-miR-6816-3p (MIRT475910)
- hsa-miR-4789-3p (MIRT475911)
- hsa-miR-137 (MIRT475912)
- hsa-miR-25-3p (MIRT475913)
- hsa-miR-363-3p (MIRT475914)
- hsa-miR-367-3p (MIRT475915)
- hsa-miR-92b-3p (MIRT475916)
- hsa-miR-92a-3p (MIRT475917)
- hsa-miR-10b-5p (MIRT475918)
- hsa-miR-10a-5p (MIRT475919)
- hsa-miR-4328 (MIRT493691)
- hsa-miR-1200 (MIRT493692)
- hsa-miR-4765 (MIRT493693)
- hsa-miR-1236-5p (MIRT493694)
- hsa-miR-544b (MIRT493695)
- hsa-miR-4324 (MIRT493696)
- hsa-miR-4793-5p (MIRT493697)
- hsa-miR-5196-3p (MIRT493698)
- hsa-miR-4662b (MIRT493699)
- hsa-miR-4426 (MIRT493700)
- hsa-miR-4647 (MIRT493701)
- hsa-miR-206 (MIRT493702)
- hsa-miR-613 (MIRT493703)
- hsa-miR-6801-5p (MIRT502272)
- hsa-miR-499b-5p (MIRT502273)
- hsa-miR-3171 (MIRT502274)
- hsa-miR-4494 (MIRT502275)
- hsa-miR-27b-3p (MIRT502276)
- hsa-miR-27a-3p (MIRT502277)
- hsa-miR-4777-5p (MIRT507048)
- hsa-miR-526a (MIRT507049)
- hsa-miR-523-5p (MIRT507050)
- hsa-miR-522-5p (MIRT507051)
- hsa-miR-520c-5p (MIRT507052)
- hsa-miR-519c-5p (MIRT507053)
- hsa-miR-519b-5p (MIRT507054)
- hsa-miR-519a-5p (MIRT507055)
- hsa-miR-518f-5p (MIRT507056)
- hsa-miR-518e-5p (MIRT507057)
- hsa-miR-518d-5p (MIRT507058)
- hsa-miR-938 (MIRT507059)
- hsa-miR-1233-3p (MIRT507060)
- hsa-miR-361-3p (MIRT507061)
- hsa-miR-3163 (MIRT507062)
- hsa-miR-605-5p (MIRT507063)
- hsa-miR-5692a (MIRT507064)
- hsa-miR-4668-3p (MIRT507065)
- hsa-miR-129-2-3p (MIRT507066)
- hsa-miR-129-1-3p (MIRT507067)
- hsa-miR-340-5p (MIRT507068)
- hsa-miR-374a-3p (MIRT507069)
- hsa-miR-1261 (MIRT523320)
- hsa-miR-4259 (MIRT523321)
- hsa-miR-4715-5p (MIRT523322)
- hsa-miR-513c-3p (MIRT523323)
- hsa-miR-513a-3p (MIRT523324)
- hsa-miR-3606-3p (MIRT523325)
- hsa-miR-505-3p (MIRT523326)
- hsa-miR-5006-5p (MIRT567338)
- hsa-miR-223-5p (MIRT567339)
- hsa-miR-630 (MIRT567340)
- hsa-miR-4755-3p (MIRT567341)
- hsa-miR-5589-3p (MIRT567342)
- hsa-miR-7705 (MIRT567343)
- hsa-miR-4280 (MIRT567344)
- hsa-miR-299-5p (MIRT567345)
- hsa-miR-4738-3p (MIRT567346)
- hsa-miR-4496 (MIRT567347)
- hsa-miR-651-3p (MIRT567348)
- hsa-miR-548g-3p (MIRT567349)
- hsa-miR-618 (MIRT567350)
- hsa-miR-432-3p (MIRT567351)
- hsa-miR-3691-5p (MIRT567352)
- hsa-miR-1193 (MIRT567353)
- hsa-miR-141-5p (MIRT567354)
- hsa-miR-6768-5p (MIRT567355)
- hsa-miR-183-5p (MIRT567356)
- mmu-miR-192-5p (MIRT735081)
- hsa-miR-105-5p (MIRT735817)
- hsa-miR-2053 (MIRT738841)
- hsa-miR-4323 (MIRT744047)
- hsa-miR-5699-5p (MIRT751328)
- hsa-miR-656-3p (MIRT753491)
- hsa-miR-6856-3p (MIRT757699)
- hsa-miR-7853-5p (MIRT759909)
miRNA products for research
Inhibitory RNAs for research
- Origene shrna, sirna, and RNAi products in human, mouse, rat for H3-3B
- Browse OriGene Inhibitory RNA Products For H3-3B
- Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H3-3B
Clone products for research
- Applied Biological Materials (abm): Clones for H3-3B - Starting at $45 >
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- * Viral Packaging Services and High Titer Production Services also available.
- Sino Biological Human cDNA Clone for H3-3B
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for H3-3B
Cell Lines for research
-
Horizon Cell Lines for H3-3B
No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for H3-3B Gene
Localization for H3-3B Gene
Subcellular locations from UniProtKB/Swiss-Prot for H3-3B Gene
- Nucleus. Chromosome.
| Compartment | Confidence |
|---|---|
| nucleus | 5 |
| extracellular | 4 |
| cytoskeleton | 2 |
| plasma membrane | 1 |
| mitochondrion | 1 |
| peroxisome | 1 |
| endoplasmic reticulum | 1 |
| endosome | 1 |
| cytosol | 1 |
| lysosome | 1 |
| golgi apparatus | 1 |
- Nucleoplasm (4)
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0000228 | nuclear chromosome | IDA | 14718166 |
| GO:0000781 | chromosome, telomeric region | IDA | 20110566 |
| GO:0000786 | nucleosome | IEA,IDA | 19633671 |
| GO:0001740 | Barr body | IEA | -- |
| GO:0005576 | extracellular region | TAS | -- |
Pathways & Interactions for H3-3B Gene
| SuperPathway | Contained pathways | ||
|---|---|---|---|
| 1 | Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 |
.88
|
.35
|
| 2 | Cellular Senescence (REACTOME) | ||
| 3 | Cell Cycle, Mitotic |
.83
|
.60
|
| 4 | Mitotic Prophase |
.57
|
|
| 5 | Development NOTCH1-mediated pathway for NF-KB activity modulation |
Development Notch Signaling Pathway
.55
Development NOTCH1-mediated pathway for NF-KB activity modulation
.55
|
Transcription Sin3 and NuRD in transcription regulation
.31
|
Pathways by source for H3-3B Gene
1 BioSystems pathway for H3-3B Gene
43 Reactome pathways for H3-3B Gene
- Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
- Activation of anterior HOX genes in hindbrain development during early embryogenesis
- Activation of HOX genes during differentiation
- Amyloid fiber formation
- B-WICH complex positively regulates rRNA expression
5 KEGG pathways for H3-3B Gene
5 GeneGo (Thomson Reuters) pathways for H3-3B Gene
- Cell cycle_Chromosome condensation in prometaphase
- Development Notch Signaling Pathway
- Development NOTCH1-mediated pathway for NF-KB activity modulation
- Signal transduction Activin A signaling regulation
- Transcription Sin3 and NuRD in transcription regulation
8 Qiagen pathways for H3-3B Gene
- Crosstalk Between CARM1 and ESRs
- ERK Signaling
- Interferon Pathway
- MAPK Family Pathway
- Nuclear Receptor Activation by Vitamin-A
1 GeneTex pathway for H3-3B Gene
Interacting Proteins for H3-3B Gene
Selected Interacting proteins:
P84243-H33_HUMAN
ENSP00000254810
for H3-3B Gene via
UniProtKB
MINT
STRING
IID
GPS-Prot Interaction Network for H3-3B
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0000183 | chromatin silencing at rDNA | TAS | -- |
| GO:0001649 | osteoblast differentiation | IEA | -- |
| GO:0006334 | nucleosome assembly | IMP | 25615412 |
| GO:0006336 | DNA replication-independent nucleosome assembly | IDA | 14718166 |
| GO:0006997 | nucleus organization | IEA | -- |
No data available for SIGNOR curated interactions for H3-3B Gene
Transcripts for H3-3B Gene
mRNA/cDNA for H3-3B Gene
- 1 REFSEQ mRNAs :
- 15 NCBI additional mRNA sequence :
- 13 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
-
- ENST00000254810 2705 nts (view in UCSC)
- ENST00000586270 468 nts (view in UCSC)
- ENST00000586518 1701 nts (view in UCSC)
- ENST00000586607 551 nts (view in UCSC)
- ENST00000587171 586 nts (view in UCSC)
CRISPR products for research
- Applied Biological Materials (abm): CRISPR Clones for H3-3B - Starting at $85 >
- * H3-3B CRISPR as ready-to-use vector or virus: Non-viral | Lenti- | Adeno- | AAV- | siRNA - Browse All
- * Cas9 Nucleases, Nickases, Null Mutants, and GFP tag also available.
-
OriGene CRISPR knockouts for H3-3B
- Search GeneCopoeia for CRISPR/Cas9 clones, lentivirus and AAV products for H3-3B
miRNA products for research
Inhibitory RNAs for research
- Origene shrna, sirna, and RNAi products in human, mouse, rat for H3-3B
- Browse OriGene Inhibitory RNA Products For H3-3B
- Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H3-3B
Clone products for research
- Applied Biological Materials (abm): Clones for H3-3B - Starting at $45 >
- * H3-3B as ready-to-use vector or virus: ORF | Lenti- | Adeno- | AAV- | Retro- | Protein Vector - Browse All
- * Viral Packaging Services and High Titer Production Services also available.
- Sino Biological Human cDNA Clone for H3-3B
- Search GeneCopoeia for ORF cDNA, lentivirus, AAV viral particles and/or promoter clone products for H3-3B
Relevant External Links for H3-3B Gene
- GeneLoc Exon Structure for
- H3-3B
Expression for H3-3B Gene
Transcriptomic regulation report from SPP (The Signaling Pathways Project) for H3-3B
SOURCE GeneReport for Unigene cluster for H3-3B Gene:
Hs.180877Evidence on tissue expression from TISSUES for H3-3B Gene
- Nervous system(5)
- Eye(4.9)
- Liver(4.9)
- Lung(4.8)
- Skin(4.7)
- Pancreas(4.6)
- Blood(4.6)
- Kidney(4.2)
- Intestine(4.1)
- Bone(3.6)
- Heart(3.6)
- Muscle(3.6)
- Stomach(3.5)
- Spleen(2.7)
- Thyroid gland(2.2)
- Bone marrow(2)
No Expression Related Data Available
Primer products for research
-
OriGene qPCR primer pairs for H3-3B
-
OriGene qPCR primer pairs and template standards for H3-3B
No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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 H3-3B Gene
Orthologs for H3-3B Gene
This gene was present in the common ancestor of animals and fungi.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| Mouse (Mus musculus) |
Mammalia | H3f3a 16 30 |
|
OneToOne | |
| H3f3b 29 16 |
|
||||
| Oppossum (Monodelphis domestica) |
Mammalia | H3F3B 30 |
|
OneToOne | |
| Cow (Bos Taurus) |
Mammalia | H3F3A 30 |
|
OneToOne | |
| H3F3B 29 |
|
||||
| Platypus (Ornithorhynchus anatinus) |
Mammalia | H3F3B 30 |
|
OneToOne | |
| Chimpanzee (Pan troglodytes) |
Mammalia | H3F3C 30 |
|
OneToOne | |
| H3F3B 29 |
|
||||
| Rat (Rattus norvegicus) |
Mammalia | H3f3b 29 |
|
||
| Dog (Canis familiaris) |
Mammalia | H3F3B 29 30 |
|
OneToOne | |
| Chicken (Gallus gallus) |
Aves | H3-IX 30 |
|
OneToOne | |
| H3F3B 29 |
|
||||
| Lizard (Anolis carolinensis) |
Reptilia | -- 30 |
|
ManyToMany | |
| Tropical Clawed Frog (Silurana tropicalis) |
Amphibia | LOC101730642 29 |
|
||
| Zebrafish (Danio rerio) |
Actinopterygii | h3f3a 30 |
|
OneToMany | |
| H3F3B (1 of 3) 30 |
|
OneToMany | |||
| H3F3B (3 of 3) 30 |
|
OneToMany | |||
| LOC565028 29 |
|
||||
| Fruit Fly (Drosophila melanogaster) |
Insecta | His3.3A 30 |
|
OneToOne | |
| His3:CG33857 29 |
|
||||
| Worm (Caenorhabditis elegans) |
Secernentea | his-71 30 |
|
OneToMany | |
| Baker's yeast (Saccharomyces cerevisiae) |
Saccharomycetes | HHT2 30 |
|
ManyToMany | |
| HHT1 30 |
|
ManyToMany | |||
| Sea Squirt (Ciona savignyi) |
Ascidiacea | CSA.1064 30 |
|
OneToOne |
- Species where no ortholog for H3-3B 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)
- Barley (Hordeum vulgare)
- Beta proteobacteria (Neisseria meningitidis)
- Bread mold (Neurospora crassa)
- 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)
- 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)
- 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 Vase (Ciona intestinalis)
- 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)
Evolution for H3-3B Gene
- ENSEMBL:
- Gene Tree for H3-3B (if available)
- TreeFam:
- Gene Tree for H3-3B (if available)
- Aminode:
- Evolutionary constrained regions (ECRs) for H3-3B: view image
- Alliance of Genome Resources:
- Additional Orthologs for H3-3B
Paralogs for H3-3B Gene
Paralogs for H3-3B Gene
Pseudogenes.org Pseudogenes for H3-3B Gene
- PGOHUM00000290399
- PGOHUM00000291403
- PGOHUM00000292187
- PGOHUM00000292329
- PGOHUM00000292600
- PGOHUM00000292914
- PGOHUM00000293230
- PGOHUM00000294371
- PGOHUM00000294497
- PGOHUM00000294681
- PGOHUM00000295589
- PGOHUM00000295685
- PGOHUM00000295750
- PGOHUM00000295973
- PGOHUM00000298158
- PGOHUM00000298284
- PGOHUM00000298310
- PGOHUM00000298407
- PGOHUM00000298973
- PGOHUM00000299123
- PGOHUM00000299285
- PGOHUM00000300331
- PGOHUM00000300502
- PGOHUM00000300504
- PGOHUM00000300505
- PGOHUM00000300511
- PGOHUM00000300512
- PGOHUM00000300513
- PGOHUM00000300516
- PGOHUM00000300518
- PGOHUM00000301051
- PGOHUM00000301096
- PGOHUM00000301857
- PGOHUM00000302005
- PGOHUM00000303758
- PGOHUM00000304076
- PGOHUM00000304128
- PGOHUM00000304330
- PGOHUM00000304542
- PGOHUM00000304824
- PGOHUM00000305058
- PGOHUM00000305295
Variants for H3-3B Gene
Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for H3-3B Gene
| SNP ID | Clinical significance and condition | Chr 17 pos | Variation | AA Info | Type |
|---|---|---|---|---|---|
| 985559 | Uncertain Significance: Inborn genetic diseases | 75,779,150(-) |
G/A NM_005324.5(H3-3B):c.25C>T (p.Arg9Cys) |
MISSENSE | |
| 986385 | Uncertain Significance: Hemiparkinsonism-hemiatrophy syndrome | 75,778,652(-) |
G/T NM_005324.5(H3-3B):c.354C>A (p.Val118=) |
SYNONYMOUS | |
| rs1555585486 | Uncertain Significance: Inborn genetic diseases | 75,779,056(-) |
T/C NM_005324.5(H3-3B):c.119A>G (p.His40Arg) |
MISSENSE | |
| rs1555585522 | Uncertain Significance: Inborn genetic diseases | 75,779,152(-) |
G/A NM_005324.5(H3-3B):c.23C>T (p.Ala8Val) |
MISSENSE |
All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).
Residual Variation Intolerance Score:
43.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score:
8.66;
86.38% of all genes are more intolerant (likely to be disease-causing)
Additional Variant Information for H3-3B Gene
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for H3-3B Gene
Disorders for H3-3B Gene
| Disorder | Aliases | PubMed IDs |
|---|---|---|
| chondroblastoma |
|
|
| clear cell chondrosarcoma |
|
|
| childhood brain stem glioma |
|
|
| bone giant cell sarcoma |
|
|
| hemiparkinsonism-hemiatrophy syndrome |
|
|
Search H3-3B in MalaCards
View complete list of genes associated with diseases
UniProtKB/Swiss-Prot
H33_HUMAN- Glioma (GLM) [MIM:137800]: Gliomas are benign or malignant central nervous system neoplasms derived from glial cells. They comprise astrocytomas and glioblastoma multiforme that are derived from astrocytes, oligodendrogliomas derived from oligodendrocytes and ependymomas derived from ependymocytes. {ECO:0000269 PubMed:22286061, ECO:0000269 PubMed:22286216, ECO:0000269 PubMed:23539269}. Note=The gene represented in this entry is involved in disease pathogenesis. H3F3A mutations affecting residues involved in post-translational modifications of histone H3.3 are recurrent in malignant, aggressive gliomas including glioblastoma multiforme (GBM) and diffuse intrinsic pontine glioma (DIPG) (PubMed:22286061, PubMed:22286216). The mechanism through which mutations lead to tumorigenesis involves altered histones methylation, impaired regulation of Polycomb repressive complex 2 (PRC2) activity, and aberrant epigenetic regulation of gene expression (PubMed:23539269, PubMed:23539183, PubMed:23603901). {ECO:0000269 PubMed:22286061, ECO:0000269 PubMed:22286216, ECO:0000269 PubMed:23539183, ECO:0000269 PubMed:23539269, ECO:0000269 PubMed:23603901}.
- Note=H3F3A and H3F3B mutations affecting residues involved in post-translational modifications of histone H3.3 are implicated in the pathogenesis of some bone and cartilage neoplasms. Mutations have been found with high prevalence in chondroblastoma and giant cell tumors of bone, and with low frequency in osteosarcoma, conventional chondrosarcoma and clear cell chondrosarcoma. Chondroblastoma samples frequently carry a H3F3B mutation affecting residue Lys-37 (H3K36), although H3F3A is mutated in some cases. Most giant cell tumors of bone harbor H3F3A mutations affecting residue Gly-35 (H3G34). {ECO:0000269 PubMed:24162739}.
Additional Disease Information for H3-3B
- Atlas
- ATLAS of Genetics and Cytogenetics in Oncology and Haematology
- Open Targets Platform
- Open Targets Platform
No data available for Genatlas for H3-3B Gene
Publications for H3-3B Gene
- The human replacement histone H3.3B gene (H3F3B). (PMID: 8586426) Albig W … Doenecke D (Genomics 1995) 2 3 4 22
- ZMYND11 links histone H3.3K36me3 to transcription elongation and tumour suppression. (PMID: 24590075) Wen H … Shi X (Nature 2014) 3 4
- Distinct H3F3A and H3F3B driver mutations define chondroblastoma and giant cell tumor of bone. (PMID: 24162739) Behjati S … Flanagan AM (Nature genetics 2013) 3 4
- Histone H3.1 and H3.3 complexes mediate nucleosome assembly pathways dependent or independent of DNA synthesis. (PMID: 14718166) Tagami H … Nakatani Y (Cell 2004) 3 4
- A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
ExternalLinks
Products for H3-3B Gene
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- Browse OriGene Inhibitory RNA Products For H3-3B
- OriGene qPCR primer pairs for H3-3B
- OriGene qPCR primer pairs and template standards for H3-3B
- OriGene CRISPR knockouts for H3-3B
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- Sino Biological Human cDNA Clone for H3-3B
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