MGP Database

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MGP001403

UniProt Annotations

Entry Information
Gene NameH3 histone, family 3B (H3.3B)
Protein EntryH33_HUMAN
UniProt IDP84243
SpeciesHuman
Comments
Comment typeDescription
Developmental StageExpressed throughout the cell cycle independently of DNA synthesis.
DomainSpecific 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. {ECO:0000269|PubMed:24590075}.
FunctionVariant 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. {ECO:0000269|PubMed:14718166, ECO:0000269|PubMed:15776021, ECO:0000269|PubMed:16258499}.
InteractionP45973:CBX5; NbExp=2; IntAct=EBI-120658, EBI-78219; Q9Y6K1:DNMT3A; NbExp=7; IntAct=EBI-120658, EBI-923653; P62805:HIST2H4B; NbExp=3; IntAct=EBI-120658, EBI-302023; Q8IZL8:PELP1; NbExp=11; IntAct=EBI-120658, EBI-716449; Q9VK33:Sfmbt (xeno); NbExp=15; IntAct=EBI-120658, EBI-117801; Q5VWG9:TAF3; NbExp=3; IntAct=EBI-120658, EBI-1560087;
PtmAcetylation 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. {ECO:0000269|PubMed:11242053, ECO:0000269|PubMed:15345777, ECO:0000269|PubMed:15471871, ECO:0000269|PubMed:16185088, ECO:0000269|PubMed:16267050, ECO:0000269|PubMed:16457588, ECO:0000269|PubMed:16497732, ECO:0000269|PubMed:17194708, ECO:0000269|PubMed:19520870, ECO:0000269|PubMed:23415232, ECO:0000269|PubMed:7309716}.
PtmAsymmetric 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. {ECO:0000269|PubMed:15345777, ECO:0000269|PubMed:15471871, ECO:0000269|PubMed:16185088, ECO:0000269|PubMed:16267050, ECO:0000269|PubMed:16457588, ECO:0000269|PubMed:16497732, ECO:0000269|PubMed:17194708, ECO:0000269|PubMed:17898714, ECO:0000269|PubMed:18077460, ECO:0000269|PubMed:18079182}.
PtmCitrullination at Arg-9 (H3R8ci) and/or Arg-18 (H3R17ci) by PADI4 impairs methylation and represses transcription. {ECO:0000269|PubMed:15345777, ECO:0000269|PubMed:15471871, ECO:0000269|PubMed:16497732, ECO:0000269|PubMed:16567635}.
PtmCrotonylation (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. {ECO:0000269|PubMed:21925322}.
PtmLysine 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 (PubMed:22483618). {ECO:0000269|PubMed:22483618}.
PtmPhosphorylated 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. Phosphorylation on Ser-32 (H3S31ph) is specific to regions bordering centromeres in metaphase chromosomes. {ECO:0000269|PubMed:10464286, ECO:0000269|PubMed:11242053, ECO:0000269|PubMed:11856369, ECO:0000269|PubMed:12560483, ECO:0000269|PubMed:15681610, ECO:0000269|PubMed:15684425, ECO:0000269|PubMed:15851689, ECO:0000269|PubMed:16185088, ECO:0000269|PubMed:16267050, ECO:0000269|PubMed:16457588, ECO:0000269|PubMed:16497732, ECO:0000269|PubMed:17194708, ECO:0000269|PubMed:18066052, ECO:0000269|PubMed:19783980, ECO:0000269|PubMed:20228790, ECO:0000269|PubMed:20850016, ECO:0000269|PubMed:7309716}.
PtmSpecifically 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. {ECO:0000269|PubMed:10464286, ECO:0000269|PubMed:11242053, ECO:0000269|PubMed:11856369, ECO:0000269|PubMed:12560483, ECO:0000269|PubMed:15525939, ECO:0000269|PubMed:15681610, ECO:0000269|PubMed:15851689, ECO:0000269|PubMed:16185088, ECO:0000269|PubMed:16267050, ECO:0000269|PubMed:16457588, ECO:0000269|PubMed:16497732, ECO:0000269|PubMed:17189264, ECO:0000269|PubMed:17194708, ECO:0000269|PubMed:19608861, ECO:0000269|PubMed:22387026, ECO:0000269|PubMed:7309716}.
PtmUbiquitinated. Monoubiquitinated by RAG1 in lymphoid cells, monoubiquitination is required for V(D)J recombination (By similarity). {ECO:0000250}.
Sequence CautionSequence=CAH73371.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
SimilarityBelongs to the histone H3 family. {ECO:0000305}.
Subcellular LocationNucleus. Chromosome.
SubunitThe 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). {ECO:0000269|PubMed:14718166, ECO:0000269|PubMed:24590075}.
Web ResourceName=Wikipedia; Note=Histone H3 entry; URL="http://en.wikipedia.org/wiki/Histone_H3";
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