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P84229

- H32_CHICK

UniProt

P84229 - H32_CHICK

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Protein

Histone H3.2

Gene
H3-I
H3-II
H3-III
H3-IV
H3-V
H3-VI
more..
H3-VII
H3-VIII less..
Organism
Gallus gallus (Chicken)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei37 – 382Involved in HMGB1-binding

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW

GO - Biological processi

  1. nucleosome assembly Source: InterPro
Complete GO annotation...

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiREACT_189773. RNA Polymerase I Chain Elongation.
REACT_194991. Oxidative Stress Induced Senescence.
REACT_197049. Amyloids.
REACT_197541. Factors involved in megakaryocyte development and platelet production.
REACT_204005. PRC2 methylates histones and DNA.
REACT_214700. Senescence-Associated Secretory Phenotype (SASP).
REACT_223091. SIRT1 negatively regulates rRNA Expression.
REACT_223355. NoRC negatively regulates rRNA expression.
REACT_224340. RNA Polymerase I Promoter Opening.

Names & Taxonomyi

Subcellular locationi

GO - Cellular componenti

  1. nucleosome Source: UniProtKB-KW
  2. nucleus Source: UniProtKB-SubCell

Keywords - Cellular componenti

Chromosome, Nucleosome core, Nucleus

PTM / Processingi

Molecule processing

Protein namesi
Recommended name:
Histone H3.2
Alternative name(s):
Histone H3 class I
Gene namesi
Name:H3-I
AND
Name:H3-II
AND
Name:H3-III
AND
Name:H3-IV
AND
Name:H3-V
AND
Name:H3-VI
AND
Name:H3-VII
AND
Name:H3-VIII
OrganismiGallus gallus (Chicken)
Taxonomic identifieri9031 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiTestudines + Archosauria groupArchosauriaDinosauriaSaurischiaTheropodaCoelurosauriaAvesNeognathaeGalliformesPhasianidaePhasianinaeGallus
ProteomesiUP000000539: Chromosome 1
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 136135Histone H3.2PRO_0000221260Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei3 – 31Asymmetric dimethylarginine; by PRMT6 By similarity
Modified residuei4 – 41Phosphothreonine; by GSG2 By similarity
Modified residuei5 – 51Allysine; alternate By similarity
Modified residuei5 – 51N6,N6,N6-trimethyllysine; alternate1 Publication
Modified residuei5 – 51N6,N6-dimethyllysine; alternate1 Publication
Modified residuei5 – 51N6-acetyllysine; alternate By similarity
Modified residuei5 – 51N6-methyllysine1 Publication
Modified residuei7 – 71Phosphothreonine; by PKC By similarity
Modified residuei10 – 101N6,N6,N6-trimethyllysine; alternate1 Publication
Modified residuei10 – 101N6,N6-dimethyllysine; alternate1 Publication
Modified residuei10 – 101N6-methyllysine; alternate1 Publication
Modified residuei11 – 111Phosphoserine; by AURKB, AURKC, RPS6KA3, RPS6KA4 and RPS6KA5 By similarity
Modified residuei12 – 121Phosphothreonine; by PKC By similarity
Modified residuei15 – 151N6,N6-dimethyllysine; alternate1 Publication
Modified residuei15 – 151N6-acetyllysine; alternate1 Publication
Modified residuei18 – 181Asymmetric dimethylarginine By similarity
Modified residuei19 – 191N6-acetyllysine; alternate1 Publication
Modified residuei19 – 191N6-methylated lysine; alternate By similarity
Modified residuei24 – 241N6-acetyllysine1 Publication
Modified residuei28 – 281N6-acetyllysine; alternate By similarity
Modified residuei28 – 281N6-methylated lysine; alternate1 Publication
Modified residuei29 – 291Phosphoserine; by AURKB, AURKC and RPS6KA5 By similarity
Modified residuei37 – 371N6-acetyllysine; alternate By similarity
Modified residuei37 – 371N6-methylated lysine; alternate1 Publication
Modified residuei42 – 421Phosphotyrosine By similarity
Modified residuei58 – 581Phosphoserine By similarity
Modified residuei65 – 651N6-methylated lysine By similarity
Modified residuei80 – 801N6,N6-dimethyllysine; alternate1 Publication
Modified residuei80 – 801N6-methyllysine; alternate1 Publication
Modified residuei81 – 811Phosphothreonine By similarity
Modified residuei116 – 1161N6-acetyllysine By similarity
Modified residuei123 – 1231N6-acetyllysine; alternate By similarity
Modified residuei123 – 1231N6-methyllysine; alternate By similarity

Post-translational modificationi

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.1 Publication
Asymmetric dimethylation at Arg-18 (H3R17me2a) is linked to gene activation Inferred. 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 By similarity.
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' Inferred.1 Publication
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.
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.

Keywords - PTMi

Acetylation, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiP84229.
PRIDEiP84229.

Expressioni

Developmental stagei

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

Interactioni

Subunit structurei

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 HMGB1.1 Publication

Protein-protein interaction databases

BioGridi687084. 4 interactions.
IntActiP84229. 3 interactions.
STRINGi9031.ENSGALP00000019185.

Structurei

Secondary structure

1
136
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi34 – 374
Helixi44 – 5714
Helixi65 – 7915
Beta strandi80 – 823
Helixi87 – 11428
Beta strandi118 – 1203
Helixi122 – 13110

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1EQZX-ray2.50C/G1-136[»]
1HIOX-ray3.10C44-136[»]
1HQ3X-ray2.15C/G1-136[»]
1TZYX-ray1.90C/G1-136[»]
2AROX-ray2.10C/G1-136[»]
2HIOX-ray3.10C1-136[»]
3C9Kelectron microscopy20.00C/G2-136[»]
ProteinModelPortaliP84229.
SMRiP84229. Positions 17-136.

Miscellaneous databases

EvolutionaryTraceiP84229.

Family & Domainsi

Sequence similaritiesi

Belongs to the histone H3 family.

Phylogenomic databases

eggNOGiCOG2036.
GeneTreeiENSGT00750000117468.
HOGENOMiHOG000155290.
HOVERGENiHBG001172.
InParanoidiP84229.
KOiK11253.
PhylomeDBiP84229.
TreeFamiTF314241.

Family and domain databases

Gene3Di1.10.20.10. 1 hit.
InterProiIPR009072. Histone-fold.
IPR007125. Histone_core_D.
IPR000164. Histone_H3.
[Graphical view]
PANTHERiPTHR11426. PTHR11426. 1 hit.
PfamiPF00125. Histone. 1 hit.
[Graphical view]
PRINTSiPR00622. HISTONEH3.
SMARTiSM00428. H3. 1 hit.
[Graphical view]
SUPFAMiSSF47113. SSF47113. 1 hit.
PROSITEiPS00322. HISTONE_H3_1. 1 hit.
PS00959. HISTONE_H3_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P84229-1 [UniParc]FASTAAdd to Basket

« Hide

MARTKQTARK STGGKAPRKQ LATKAARKSA PATGGVKKPH RYRPGTVALR    50
EIRRYQKSTE LLIRKLPFQR LVREIAQDFK TDLRFQSSAV MALQEASEAY 100
LVGLFEDTNL CAIHAKRVTI MPKDIQLARR IRGERA 136
Length:136
Mass (Da):15,388
Last modified:January 23, 2007 - v2
Checksum:i6FD8508EA50A0EEC
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X02218 Genomic DNA. Translation: CAA26138.1.
J00869 Genomic DNA. Translation: AAA48795.1. Sequence problems.
M61154 Genomic DNA. Translation: AAA48796.1.
M61155 Genomic DNA. Translation: AAA48797.1.
X62291 Genomic DNA. Translation: CAA44180.1.
X62292 Genomic DNA. Translation: CAA44181.1.
U37577 Genomic DNA. Translation: AAC60003.1.
U37578 Genomic DNA. Translation: AAC60004.1.
U37579 Genomic DNA. Translation: AAC60005.1.
PIRiS18716. HSCH3.
RefSeqiNP_001268409.1. NM_001281480.1.
NP_001268438.1. NM_001281509.1.
XP_001232833.1. XM_001232832.3.
XP_001233028.1. XM_001233027.3.
XP_004937729.1. XM_004937672.1.
XP_416193.2. XM_416193.3.
UniGeneiGga.5274.

Genome annotation databases

EnsembliENSGALT00000042655; ENSGALP00000042290; ENSGALG00000027064.
ENSGALT00000043934; ENSGALP00000040958; ENSGALG00000027257.
GeneIDi100858681.
417953.
768333.
769809.
769852.
770022.
KEGGigga:100858681.
gga:417953.
gga:768333.
gga:769809.
gga:769852.
gga:770022.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X02218 Genomic DNA. Translation: CAA26138.1 .
J00869 Genomic DNA. Translation: AAA48795.1 . Sequence problems.
M61154 Genomic DNA. Translation: AAA48796.1 .
M61155 Genomic DNA. Translation: AAA48797.1 .
X62291 Genomic DNA. Translation: CAA44180.1 .
X62292 Genomic DNA. Translation: CAA44181.1 .
U37577 Genomic DNA. Translation: AAC60003.1 .
U37578 Genomic DNA. Translation: AAC60004.1 .
U37579 Genomic DNA. Translation: AAC60005.1 .
PIRi S18716. HSCH3.
RefSeqi NP_001268409.1. NM_001281480.1.
NP_001268438.1. NM_001281509.1.
XP_001232833.1. XM_001232832.3.
XP_001233028.1. XM_001233027.3.
XP_004937729.1. XM_004937672.1.
XP_416193.2. XM_416193.3.
UniGenei Gga.5274.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1EQZ X-ray 2.50 C/G 1-136 [» ]
1HIO X-ray 3.10 C 44-136 [» ]
1HQ3 X-ray 2.15 C/G 1-136 [» ]
1TZY X-ray 1.90 C/G 1-136 [» ]
2ARO X-ray 2.10 C/G 1-136 [» ]
2HIO X-ray 3.10 C 1-136 [» ]
3C9K electron microscopy 20.00 C/G 2-136 [» ]
ProteinModelPortali P84229.
SMRi P84229. Positions 17-136.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 687084. 4 interactions.
IntActi P84229. 3 interactions.
STRINGi 9031.ENSGALP00000019185.

Proteomic databases

PaxDbi P84229.
PRIDEi P84229.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSGALT00000042655 ; ENSGALP00000042290 ; ENSGALG00000027064 .
ENSGALT00000043934 ; ENSGALP00000040958 ; ENSGALG00000027257 .
GeneIDi 100858681.
417953.
768333.
769809.
769852.
770022.
KEGGi gga:100858681.
gga:417953.
gga:768333.
gga:769809.
gga:769852.
gga:770022.

Phylogenomic databases

eggNOGi COG2036.
GeneTreei ENSGT00750000117468.
HOGENOMi HOG000155290.
HOVERGENi HBG001172.
InParanoidi P84229.
KOi K11253.
PhylomeDBi P84229.
TreeFami TF314241.

Enzyme and pathway databases

Reactomei REACT_189773. RNA Polymerase I Chain Elongation.
REACT_194991. Oxidative Stress Induced Senescence.
REACT_197049. Amyloids.
REACT_197541. Factors involved in megakaryocyte development and platelet production.
REACT_204005. PRC2 methylates histones and DNA.
REACT_214700. Senescence-Associated Secretory Phenotype (SASP).
REACT_223091. SIRT1 negatively regulates rRNA Expression.
REACT_223355. NoRC negatively regulates rRNA expression.
REACT_224340. RNA Polymerase I Promoter Opening.

Miscellaneous databases

EvolutionaryTracei P84229.
NextBioi 20821179.

Family and domain databases

Gene3Di 1.10.20.10. 1 hit.
InterProi IPR009072. Histone-fold.
IPR007125. Histone_core_D.
IPR000164. Histone_H3.
[Graphical view ]
PANTHERi PTHR11426. PTHR11426. 1 hit.
Pfami PF00125. Histone. 1 hit.
[Graphical view ]
PRINTSi PR00622. HISTONEH3.
SMARTi SM00428. H3. 1 hit.
[Graphical view ]
SUPFAMi SSF47113. SSF47113. 1 hit.
PROSITEi PS00322. HISTONE_H3_1. 1 hit.
PS00959. HISTONE_H3_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Inverted duplication of histone genes in chicken and disposition of regulatory sequences."
    Wang S.W., Robins A.J., D'Andrea R., Wells J.R.E.
    Nucleic Acids Res. 13:1369-1387(1985) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "A chicken histone H3 gene contains intervening sequences."
    Engel J.D., Sugarman B.J., Dodgson J.B.
    Nature 297:434-436(1982) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "Nucleotide sequences of two members of the chicken H3 histone-encoding gene family."
    Nakayama T.
    Gene 102:289-290(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (H3-II AND H3-III).
  4. "Nucleotide sequences of new members (H3-IV and H3-V) of the chicken H3 histone-encoding gene family."
    Setoguchi Y., Nakayama T.
    Nucleic Acids Res. 19:6327-6327(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (H3-IV AND H3-V).
    Strain: White leghorn.
  5. "Organization of the chicken histone genes in a major gene cluster and generation of an almost complete set of the core histone protein sequences."
    Takami Y., Higashio M., Fukuoka T., Takechi S., Nakayama T.
    DNA Res. 3:95-99(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (H3-VI; H3-VII AND H3-VIII).
    Strain: White leghorn.
    Tissue: Liver.
  6. "The determination of the primary structure of histone F3 from chicken erythrocytes by automatic Edman degradation. 2. Sequence analysis of histone F3."
    Brandt W.F., von Holt C.
    Eur. J. Biochem. 46:419-429(1974) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-136.
  7. "Identification of acetylation and methylation sites of histone H3 from chicken erythrocytes by high-accuracy matrix-assisted laser desorption ionization-time-of-flight, matrix-assisted laser desorption ionization-postsource decay, and nanoelectrospray ionization tandem mass spectrometry."
    Zhang K., Tang H., Huang L., Blankenship J.W., Jones P.R., Xiang F., Yau P.M., Burlingame A.L.
    Anal. Biochem. 306:259-269(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: METHYLATION AT LYS-5; LYS-10; LYS-15; LYS-28; LYS-37 AND LYS-80, ACETYLATION AT LYS-15; LYS-19 AND LYS-24, IDENTIFICATION BY MASS SPECTROMETRY.
  8. "Distinct domains in HMGB1 are involved in specific intramolecular and nucleosomal interactions."
    Kawase T., Sato K., Ueda T., Yoshida M.
    Biochemistry 47:13991-13996(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH HMGB1.
  9. "The nucleosomal core histone octamer at 3.1 A resolution: a tripartite protein assembly and a left-handed superhelix."
    Arents G., Burlingame R.W., Wang B.-C., Love W.E., Moudrianakis E.N.
    Proc. Natl. Acad. Sci. U.S.A. 88:10148-10152(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS).
  10. "Asymmetries in the nucleosome core particle at 2.5 A resolution."
    Harp J.M., Hanson B.L., Timm D.E., Bunick G.J.
    Acta Crystallogr. D 56:1513-1534(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS) IN COMPLEX WITH H2A; H2B AND H4.
  11. "Structure of the histone-core octamer in KCl/phosphate crystals at 2.15 A resolution."
    Chantalat L., Nicholson J.M., Lambert S.J., Reid A.J., Donovan M.J., Reynolds C.D., Wood C.M., Baldwin J.P.
    Acta Crystallogr. D 59:1395-1407(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.15 ANGSTROMS) IN COMPLEX WITH H2A AND H2B.

Entry informationi

Entry nameiH32_CHICK
AccessioniPrimary (citable) accession number: P84229
Secondary accession number(s): P02295
, P02297, P16105, P17269, P17320
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: January 23, 2007
Last modified: September 3, 2014
This is version 94 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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