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P62801

- H4_CHICK

UniProt

P62801 - H4_CHICK

Protein

Histone H4

Gene

H4-I

more
Organism
Gallus gallus (Chicken)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
  1. 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.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi17 – 215

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW

    GO - Biological processi

    1. nucleosome assembly Source: InterPro

    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_197522. Meiotic recombination.
    REACT_197579. Deposition of new CENPA-containing nucleosomes at the centromere.
    REACT_197820. HATs acetylate histones.
    REACT_198068. Condensation of Prophase Chromosomes.
    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

    Protein namesi
    Recommended name:
    Histone H4
    Gene namesi
    Name:H4-I
    AND
    Name:H4-II
    AND
    Name:H4-III
    AND
    Name:H4-IV
    AND
    Name:H4-V
    AND
    Name:H4-VI
    AND
    Name:H4-VII
    OrganismiGallus gallus (Chicken)
    Taxonomic identifieri9031 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiTestudines + Archosauria groupArchosauriaDinosauriaSaurischiaTheropodaCoelurosauriaAvesNeognathaeGalliformesPhasianidaePhasianinaeGallus
    ProteomesiUP000000539: Chromosome 1

    Subcellular locationi

    GO - Cellular componenti

    1. nucleoplasm Source: Reactome
    2. nucleosome Source: UniProtKB-KW

    Keywords - Cellular componenti

    Chromosome, Nucleosome core, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11RemovedBy similarity
    Chaini2 – 103102Histone H4PRO_0000158296Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylserineBy similarity
    Modified residuei2 – 21PhosphoserineBy similarity
    Modified residuei4 – 41Asymmetric dimethylarginine; by PRMT1; alternateBy similarity
    Modified residuei4 – 41Citrulline; alternateBy similarity
    Modified residuei4 – 41Omega-N-methylarginine; by PRMT1; alternateBy similarity
    Modified residuei4 – 41Symmetric dimethylarginine; by PRMT5 and PRMT7; alternateBy similarity
    Modified residuei6 – 61N6-acetyllysineBy similarity
    Modified residuei9 – 91N6-acetyllysineBy similarity
    Modified residuei13 – 131N6-acetyllysineBy similarity
    Modified residuei17 – 171N6-acetyllysineBy similarity
    Modified residuei21 – 211N6,N6,N6-trimethyllysine; alternateBy similarity
    Modified residuei21 – 211N6,N6-dimethyllysine; alternateBy similarity
    Modified residuei21 – 211N6-methylated lysineBy similarity
    Modified residuei21 – 211N6-methyllysine; alternateBy similarity
    Modified residuei32 – 321N6-acetyllysineBy similarity
    Modified residuei48 – 481Phosphoserine; by PAK2By similarity
    Modified residuei52 – 521PhosphotyrosineBy similarity
    Modified residuei60 – 601N6-acetyllysineBy similarity
    Modified residuei80 – 801N6-acetyllysineBy similarity
    Modified residuei89 – 891PhosphotyrosineBy similarity
    Modified residuei92 – 921N6-acetyllysine; alternateBy similarity
    Cross-linki92 – 92Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternateBy similarity

    Post-translational modificationi

    Acetylation at Lys-6 (H4K5ac), Lys-9 (H4K8ac), Lys-13 (H4K12ac) and Lys-17 (H4K16ac) occurs in coding regions of the genome but not in heterochromatin.By similarity
    Citrullination at Arg-4 (H4R3ci) by PADI4 impairs methylation.By similarity
    Monomethylation and asymmetric dimethylation at Arg-4 (H4R3me1 and H4R3me2a, respectively) by PRMT1 favors acetylation at Lys-9 (H4K8ac) and Lys-13 (H4K12ac). Demethylation is performed by JMJD6. Symmetric dimethylation on Arg-4 (H4R3me2s) by the PRDM1/PRMT5 complex may play a crucial role in the germ-cell lineage By similarity.By similarity
    Monomethylated, dimethylated or trimethylated at Lys-21 (H4K20me1, H4K20me2, H4K20me3). Monomethylation is performed by SET8. Trimethylation is performed by SUV420H1 and SUV420H2 and induces gene silencing By similarity.By similarity
    Phosphorylated by PAK2 at Ser-48 (H4S47ph). This phosphorylation increases the association of H3.3-H4 with the histone chaperone HIRA, thus promoting nucleosome assembly of H3.3-H4 and inhibiting nucleosome assembly of H3.1-H4 By similarity.By similarity
    Ubiquitinated by the CUL4-DDB-RBX1 complex in response to ultraviolet irradiation. This may weaken the interaction between histones and DNA and facilitate DNA accessibility to repair proteins. Monoubiquitinated at Lys-92 of histone H4 (H4K91ub1) in response to DNA damage. The exact role of H4K91ub1 in DNA damage response is still unclear but it may function as a licensing signal for additional histone H4 post-translational modifications such as H4 Lys-21 methylation (H4K20me) By similarity.By similarity
    Sumoylated, which is associated with transcriptional repression.By similarity

    Keywords - PTMi

    Acetylation, Citrullination, Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

    Proteomic databases

    PaxDbiP62801.
    PRIDEiP62801.

    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.

    Protein-protein interaction databases

    BioGridi679227. 6 interactions.
    IntActiP62801. 2 interactions.
    STRINGi9031.ENSGALP00000037292.

    Structurei

    Secondary structure

    1
    103
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi26 – 294
    Helixi32 – 4110
    Helixi51 – 7626
    Beta strandi80 – 823
    Helixi84 – 9310
    Beta strandi97 – 1004

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1EQZX-ray2.50D/H1-103[»]
    1HIOX-ray3.10D28-103[»]
    1HQ3X-ray2.15D/H1-103[»]
    1TZYX-ray1.90D/H1-103[»]
    2AROX-ray2.10D/H1-103[»]
    2HIOX-ray3.10D1-103[»]
    3C9Kelectron microscopy20.00D/H2-103[»]
    ProteinModelPortaliP62801.
    SMRiP62801. Positions 21-102.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP62801.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the histone H4 family.Curated

    Phylogenomic databases

    eggNOGiCOG2036.
    GeneTreeiENSGT00750000117311.
    HOVERGENiHBG051878.
    InParanoidiP62801.
    KOiK11254.
    PhylomeDBiP62801.

    Family and domain databases

    Gene3Di1.10.20.10. 1 hit.
    InterProiIPR009072. Histone-fold.
    IPR007125. Histone_core_D.
    IPR001951. Histone_H4.
    IPR019809. Histone_H4_CS.
    [Graphical view]
    PfamiPF00125. Histone. 1 hit.
    [Graphical view]
    PRINTSiPR00623. HISTONEH4.
    SMARTiSM00417. H4. 1 hit.
    [Graphical view]
    SUPFAMiSSF47113. SSF47113. 1 hit.
    PROSITEiPS00047. HISTONE_H4. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    P62801-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSGRGKGGKG LGKGGAKRHR KVLRDNIQGI TKPAIRRLAR RGGVKRISGL    50
    IYEETRGVLK VFLENVIRDA VTYTEHAKRK TVTAMDVVYA LKRQGRTLYG 100
    FGG 103
    Length:103
    Mass (Da):11,367
    Last modified:January 23, 2007 - v2
    Checksum:iA9E5DFD3F8B97598
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X02218 Genomic DNA. Translation: CAA26137.1.
    X02218 Genomic DNA. Translation: CAA26140.1.
    J00866 Genomic DNA. No translation available.
    M74533 Genomic DNA. Translation: AAA73091.1.
    M74534 Genomic DNA. Translation: AAA73092.1.
    U37575 Genomic DNA. Translation: AAC59999.1.
    U37575 Genomic DNA. Translation: AAC60001.1.
    PIRiA02640. HSCH4.
    JH0507.
    RefSeqiNP_001032932.1. NM_001037843.1.
    NP_001032934.1. NM_001037845.1.
    NP_001268414.1. NM_001281485.1.
    XP_001233095.1. XM_001233094.3.
    XP_001233180.1. XM_001233179.3.
    XP_003640418.1. XM_003640370.2.
    XP_004937726.1. XM_004937669.1.
    XP_425458.2. XM_425458.4.
    UniGeneiGga.39882.

    Genome annotation databases

    EnsembliENSGALT00000046233; ENSGALP00000041526; ENSGALG00000025786.
    GeneIDi100858049.
    100858319.
    417946.
    417950.
    427884.
    770005.
    770079.
    770142.
    KEGGigga:100858049.
    gga:100858319.
    gga:417946.
    gga:417950.
    gga:427884.
    gga:770005.
    gga:770079.
    gga:770142.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X02218 Genomic DNA. Translation: CAA26137.1 .
    X02218 Genomic DNA. Translation: CAA26140.1 .
    J00866 Genomic DNA. No translation available.
    M74533 Genomic DNA. Translation: AAA73091.1 .
    M74534 Genomic DNA. Translation: AAA73092.1 .
    U37575 Genomic DNA. Translation: AAC59999.1 .
    U37575 Genomic DNA. Translation: AAC60001.1 .
    PIRi A02640. HSCH4.
    JH0507.
    RefSeqi NP_001032932.1. NM_001037843.1.
    NP_001032934.1. NM_001037845.1.
    NP_001268414.1. NM_001281485.1.
    XP_001233095.1. XM_001233094.3.
    XP_001233180.1. XM_001233179.3.
    XP_003640418.1. XM_003640370.2.
    XP_004937726.1. XM_004937669.1.
    XP_425458.2. XM_425458.4.
    UniGenei Gga.39882.

    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 D/H 1-103 [» ]
    1HIO X-ray 3.10 D 28-103 [» ]
    1HQ3 X-ray 2.15 D/H 1-103 [» ]
    1TZY X-ray 1.90 D/H 1-103 [» ]
    2ARO X-ray 2.10 D/H 1-103 [» ]
    2HIO X-ray 3.10 D 1-103 [» ]
    3C9K electron microscopy 20.00 D/H 2-103 [» ]
    ProteinModelPortali P62801.
    SMRi P62801. Positions 21-102.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 679227. 6 interactions.
    IntActi P62801. 2 interactions.
    STRINGi 9031.ENSGALP00000037292.

    Proteomic databases

    PaxDbi P62801.
    PRIDEi P62801.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSGALT00000046233 ; ENSGALP00000041526 ; ENSGALG00000025786 .
    GeneIDi 100858049.
    100858319.
    417946.
    417950.
    427884.
    770005.
    770079.
    770142.
    KEGGi gga:100858049.
    gga:100858319.
    gga:417946.
    gga:417950.
    gga:427884.
    gga:770005.
    gga:770079.
    gga:770142.

    Organism-specific databases

    CTDi 100858049.
    100858319.
    417946.
    417950.
    427884.
    770005.
    770079.
    770142.

    Phylogenomic databases

    eggNOGi COG2036.
    GeneTreei ENSGT00750000117311.
    HOVERGENi HBG051878.
    InParanoidi P62801.
    KOi K11254.
    PhylomeDBi P62801.

    Enzyme and pathway databases

    Reactomei REACT_189773. RNA Polymerase I Chain Elongation.
    REACT_194991. Oxidative Stress Induced Senescence.
    REACT_197049. Amyloids.
    REACT_197522. Meiotic recombination.
    REACT_197579. Deposition of new CENPA-containing nucleosomes at the centromere.
    REACT_197820. HATs acetylate histones.
    REACT_198068. Condensation of Prophase Chromosomes.
    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 P62801.
    NextBioi 20821175.
    PROi P62801.

    Family and domain databases

    Gene3Di 1.10.20.10. 1 hit.
    InterProi IPR009072. Histone-fold.
    IPR007125. Histone_core_D.
    IPR001951. Histone_H4.
    IPR019809. Histone_H4_CS.
    [Graphical view ]
    Pfami PF00125. Histone. 1 hit.
    [Graphical view ]
    PRINTSi PR00623. HISTONEH4.
    SMARTi SM00417. H4. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47113. SSF47113. 1 hit.
    PROSITEi PS00047. HISTONE_H4. 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. "Genomic organization, DNA sequence, and expression of chicken embryonic histone genes."
      Sugarman B.J., Dodgson J.B., Engel J.D.
      J. Biol. Chem. 258:9005-9016(1983) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. "Nucleotide sequences of two members of the chicken H4 histone-encoding gene family."
      Nakayama T., Takechi S., Ohshige T., Kondo K., Yamamoto K.
      Gene 108:311-312(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (H4-III AND H4-IV).
    4. "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] (H4-VI AND H4-VII).
      Strain: White leghorn.
      Tissue: Liver.
    5. "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).
    6. "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).

    Entry informationi

    Entry nameiH4_CHICK
    AccessioniPrimary (citable) accession number: P62801
    Secondary accession number(s): P02304, P02305
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 21, 1986
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 100 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, 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