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P84233 (H32_XENLA) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 84. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Histone H3.2
OrganismXenopus laevis (African clawed frog)
Taxonomic identifier8355 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusXenopus

Protein attributes

Sequence length136 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

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.

Subunit 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.

Subcellular location

Nucleus. Chromosome.

Developmental stage

Expressed during S phase, then expression strongly decreases as cell division slows down during the process of differentiation.

Post-translational modification

Acetylation is generally linked to gene activation. 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 By similarity. Ref.4

Methylation at Lys-5 (H3K4me), Lys-37 (H3K36me) and Lys-80 (H3K79me) are linked to gene activation. 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) are linked to gene repression. 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' By similarity. Ref.4

Phosphorylated 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 By similarity. Ref.4

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 only takes place on H3K4me3 and results in gene repression By similarity.

Sequence similarities

Belongs to the histone H3 family.

Ontologies

Keywords
   Cellular componentChromosome
Nucleosome core
Nucleus
   LigandDNA-binding
   PTMAcetylation
Methylation
Phosphoprotein
Ubl conjugation
   Technical term3D-structure
Gene Ontology (GO)
   Biological_processnucleosome assembly

Inferred from electronic annotation. Source: InterPro

   Cellular_componentnucleoplasm

Traceable author statement. Source: Reactome

nucleosome

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_functionDNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

protein binding

Inferred from physical interaction PubMed 17293877. Source: IntAct

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

P627992EBI-350041,EBI-302085

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Initiator methionine11Removed By similarity
Chain2 – 136135Histone H3.2
PRO_0000221265

Amino acid modifications

Modified residue31Asymmetric dimethylarginine; by PRMT6 By similarity
Modified residue41Phosphothreonine; by GSG2 By similarity
Modified residue51Allysine; alternate By similarity
Modified residue51N6,N6,N6-trimethyllysine; alternate Ref.4
Modified residue51N6,N6-dimethyllysine; alternate Ref.4
Modified residue51N6-acetyllysine; alternate By similarity
Modified residue51N6-methyllysine; alternate Ref.4
Modified residue71Phosphothreonine; by PKC By similarity
Modified residue101N6-methylated lysine Ref.4
Modified residue111Phosphoserine; by AURKB, AURKC, RPS6KA3, RPS6KA4 and RPS6KA5 By similarity
Modified residue121Phosphothreonine; by PKC By similarity
Modified residue151N6-acetyllysine Ref.4
Modified residue181Asymmetric dimethylarginine Ref.4
Modified residue191N6-acetyllysine; alternate By similarity
Modified residue191N6-methylated lysine; alternate By similarity
Modified residue241N6-acetyllysine By similarity
Modified residue281N6-acetyllysine; alternate By similarity
Modified residue281N6-methylated lysine; alternate By similarity
Modified residue291Phosphoserine; by AURKB, AURKC and RPS6KA5 By similarity
Modified residue371N6-acetyllysine; alternate By similarity
Modified residue371N6-methylated lysine; alternate By similarity
Modified residue421Phosphotyrosine By similarity
Modified residue581Phosphoserine By similarity
Modified residue651N6-methylated lysine By similarity
Modified residue801N6-methylated lysine By similarity
Modified residue811Phosphothreonine By similarity
Modified residue1161N6-acetyllysine By similarity
Modified residue1231N6-acetyllysine; alternate By similarity
Modified residue1231N6-methyllysine; alternate By similarity

Secondary structure

...................... 136
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P84233 [UniParc].

Last modified January 23, 2007. Version 2.
Checksum: 6FD8508EA50A0EEC

FASTA13615,388
        10         20         30         40         50         60 
MARTKQTARK STGGKAPRKQ LATKAARKSA PATGGVKKPH RYRPGTVALR EIRRYQKSTE 

        70         80         90        100        110        120 
LLIRKLPFQR LVREIAQDFK TDLRFQSSAV MALQEASEAY LVGLFEDTNL CAIHAKRVTI 

       130 
MPKDIQLARR IRGERA 

« Hide

References

« Hide 'large scale' references
[1]"Individual Xenopus histone genes are replication-independent in oocytes and replication-dependent in Xenopus or mouse somatic cells."
Old R.W., Sheikh S.A., Chambers A., Newton C.A., Mohammed A., Aldridge T.C.
Nucleic Acids Res. 13:7341-7358(1985) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]"Genomic organization and nucleotide sequence of two distinct histone gene clusters from Xenopus laevis. Identification of novel conserved upstream sequence elements."
Perry M., Thomsen G.H., Roeder R.G.
J. Mol. Biol. 185:479-499(1985) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (GENE CLUSTERS X1H1 AND X1H3).
[3]NIH - Xenopus Gene Collection (XGC) project
Submitted (MAR-2007) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Tissue: Embryo.
[4]"Involvement of histone methylation and phosphorylation in regulation of transcription by thyroid hormone receptor."
Li J., Lin Q., Yoon H.-G., Huang Z.-Q., Strahl B.D., Allis C.D., Wong J.
Mol. Cell. Biol. 22:5688-5697(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: METHYLATION AT LYS-5; LYS-10 AND ARG-18, PHOSPHORYLATION AT SER-11, ACETYLATION AT LYS-15.
[5]"Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 A resolution."
Davey C.A., Sargent D.F., Luger K., Maeder A.W., Richmond T.J.
J. Mol. Biol. 319:1097-1113(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) IN COMPLEX WITH H2A; H2B AND H4.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X03104 Genomic DNA. Translation: CAA26890.1.
X03017 Genomic DNA. Translation: CAA26813.1.
X03018 Genomic DNA. Translation: CAA26818.1.
M21286 Genomic DNA. Translation: AAA49765.1.
M21287 Genomic DNA. Translation: AAA49770.1.
BC133776 mRNA. Translation: AAI33777.1.
PIRHSXL31. A93596.
I51448.
RefSeqNP_001091428.1. NM_001097959.1.
UniGeneXl.85517.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1F66X-ray2.60A/E1-136[»]
1KX3X-ray2.00A/E2-136[»]
1KX4X-ray2.60A/E2-136[»]
1KX5X-ray1.94A/E2-136[»]
1P34X-ray2.70A/E2-136[»]
1P3AX-ray3.00A/E2-136[»]
1P3BX-ray3.00A/E2-136[»]
1P3FX-ray2.90A/E2-136[»]
1P3GX-ray2.70A/E2-136[»]
1P3IX-ray2.30A/E2-136[»]
1P3KX-ray2.90A/E2-136[»]
1P3LX-ray2.40A/E2-136[»]
1P3MX-ray2.90A/E2-136[»]
1P3OX-ray2.75A/E2-136[»]
1P3PX-ray2.70A/E2-136[»]
1S32X-ray2.05A/E2-136[»]
1ZBBX-ray9.00A/E/a/e2-136[»]
1ZLAX-ray2.90A/E2-136[»]
2F8NX-ray2.90A/E1-136[»]
2FJ7X-ray3.20A/E2-136[»]
2HUEX-ray1.70B62-136[»]
2IO5X-ray2.70B2-136[»]
2NZDX-ray2.65A/E2-136[»]
3B6FX-ray3.45A/E2-136[»]
3B6GX-ray3.45A/E2-136[»]
3C1BX-ray2.20A/E2-136[»]
3C1CX-ray3.15A/E2-136[»]
3GV6X-ray1.76B2-16[»]
3KUYX-ray2.90A/E2-136[»]
3KWQX-ray3.50A/E39-136[»]
3KXBX-ray3.20A/E2-136[»]
3LELX-ray2.95A/E/K/O1-136[»]
3LJAX-ray2.75A/E2-136[»]
3LZ0X-ray2.50A/E2-136[»]
3LZ1X-ray2.50A/E2-136[»]
3MGPX-ray2.44A/E2-136[»]
3MGQX-ray2.65A/E2-136[»]
3MGRX-ray2.30A/E2-136[»]
3MGSX-ray3.15A/E2-136[»]
3MNNX-ray2.50A/E2-136[»]
3MVDX-ray2.90A/E2-136[»]
3O62X-ray3.22A/E2-136[»]
3REHX-ray2.50A/E2-136[»]
3REIX-ray2.65A/E2-136[»]
3REJX-ray2.55A/E2-136[»]
3REKX-ray2.60A/E2-136[»]
3RELX-ray2.70A/E2-136[»]
3TU4X-ray3.00A/E2-136[»]
3UT9X-ray2.20A/E2-136[»]
3UTAX-ray2.07A/E2-136[»]
3UTBX-ray2.20A/E2-136[»]
4EO5X-ray2.35B62-136[»]
4J8UX-ray2.38A/E2-136[»]
4J8VX-ray2.58A/E2-136[»]
4J8WX-ray2.41A/E2-136[»]
4J8XX-ray2.87A/E2-136[»]
4KGCX-ray2.69A/E1-136[»]
4LD9X-ray3.31A/E1-136[»]
ProteinModelPortalP84233.
SMRP84233. Positions 17-136.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid674575. 2 interactions.
DIPDIP-37430N.
IntActP84233. 4 interactions.

Proteomic databases

PRIDEP84233.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID100049126.
KEGGxla:100049126.

Organism-specific databases

CTD126961.
XenbaseXB-GENE-866635. hist2h3c.

Phylogenomic databases

HOVERGENHBG001172.
KOK11253.

Family and domain databases

Gene3D1.10.20.10. 1 hit.
InterProIPR009072. Histone-fold.
IPR007125. Histone_core_D.
IPR000164. Histone_H3.
[Graphical view]
PANTHERPTHR11426. PTHR11426. 1 hit.
PfamPF00125. Histone. 1 hit.
[Graphical view]
PRINTSPR00622. HISTONEH3.
SMARTSM00428. H3. 1 hit.
[Graphical view]
SUPFAMSSF47113. SSF47113. 1 hit.
PROSITEPS00322. HISTONE_H3_1. 1 hit.
PS00959. HISTONE_H3_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP84233.

Entry information

Entry nameH32_XENLA
AccessionPrimary (citable) accession number: P84233
Secondary accession number(s): A4FVE2 expand/collapse secondary AC list , P02295, P02297, P16105, P17269, P17320
Entry history
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: January 23, 2007
Last modified: July 9, 2014
This is version 84 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references