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P0C1H3

- H2B1_CHICK

UniProt

P0C1H3 - H2B1_CHICK

Protein

Histone H2B 1/2/3/4/6

Gene

H2B-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.1 Publication
    Has broad-spectrum antibacterial activity. May be important in the antimicrobial defenses of chick reproductive system during follicle development in the ovary and egg formation in the oviduct.1 Publication

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW

    GO - Biological processi

    1. defense response to bacterium Source: UniProtKB-KW
    2. nucleosome assembly Source: InterPro

    Keywords - Molecular functioni

    Antibiotic, Antimicrobial

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Histone H2B 1/2/3/4/6
    Alternative name(s):
    H2B I
    H2B II
    H2B III
    H2B IV
    H2B VI
    Gene namesi
    Name:H2B-I
    AND
    Name:H2B-II
    AND
    Name:H2B-III
    AND
    Name:H2B-IV
    AND
    Name:H2B-VI
    OrganismiGallus gallus (Chicken)
    Taxonomic identifieri9031 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiTestudines + Archosauria groupArchosauriaDinosauriaSaurischiaTheropodaCoelurosauriaAvesNeognathaeGalliformesPhasianidaePhasianinaeGallus
    ProteomesiUP000000539: Chromosome 1

    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

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed2 Publications
    Chaini2 – 126125Histone H2B 1/2/3/4/6PRO_0000071846Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei6 – 61N6-acetyllysine1 Publication
    Modified residuei13 – 131N6-acetyllysine1 Publication
    Modified residuei15 – 151Phosphoserine1 Publication
    Modified residuei16 – 161N6-acetyllysine1 Publication
    Modified residuei21 – 211N6-acetyllysine1 Publication
    Cross-linki121 – 121Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)1 Publication

    Post-translational modificationi

    Monoubiquitination of Lys-121 by the BRE1 gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 'Lys-4' and 'Lys-79' methylation.By similarity
    Phosphorylated on Ser-15 during apoptosis; which facilitates apoptotic chromatin condensation.1 Publication

    Keywords - PTMi

    Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

    Proteomic databases

    PaxDbiP0C1H3.

    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

    BioGridi679231. 3 interactions.
    IntActiP0C1H3. 1 interaction.
    STRINGi9031.ENSGALP00000037300.

    Structurei

    Secondary structure

    1
    126
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi39 – 4911
    Helixi57 – 8428
    Beta strandi88 – 903
    Helixi92 – 10211
    Helixi105 – 12420

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2AROX-ray2.10B/F1-126[»]
    ProteinModelPortaliP0C1H3.
    SMRiP0C1H3. Positions 19-126.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP0C1H3.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the histone H2B family.Curated

    Phylogenomic databases

    eggNOGiNOG303883.
    GeneTreeiENSGT00720000108413.
    HOGENOMiHOG000231213.
    HOVERGENiHBG007774.
    InParanoidiP0C1H3.
    KOiK11252.
    PhylomeDBiP0C1H3.
    TreeFamiTF300212.

    Family and domain databases

    Gene3Di1.10.20.10. 1 hit.
    InterProiIPR009072. Histone-fold.
    IPR007125. Histone_core_D.
    IPR000558. Histone_H2B.
    [Graphical view]
    PANTHERiPTHR23428. PTHR23428. 1 hit.
    PfamiPF00125. Histone. 1 hit.
    [Graphical view]
    PRINTSiPR00621. HISTONEH2B.
    SMARTiSM00427. H2B. 1 hit.
    [Graphical view]
    SUPFAMiSSF47113. SSF47113. 1 hit.
    PROSITEiPS00357. HISTONE_H2B. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    P0C1H3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MPEPAKSAPA PKKGSKKAVT KTQKKGDKKR KKSRKESYSI YVYKVLKQVH    50
    PDTGISSKAM GIMNSFVNDI FERIAGEASR LAHYNKRSTI TSREIQTAVR 100
    LLLPGELAKH AVSEGTKAVT KYTSSK 126
    Length:126
    Mass (Da):13,922
    Last modified:January 23, 2007 - v2
    Checksum:i908F039A02A3400D
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti14 – 141G → A in CAA28745. (PubMed:3822819)Curated
    Sequence conflicti36 – 361E → A in CAA28747. (PubMed:3822819)Curated
    Sequence conflicti62 – 621I → S AA sequence (PubMed:7074112)Curated
    Sequence conflicti123 – 1231T → I in CAA28751. (PubMed:3822819)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    V00415 Genomic DNA. Translation: CAA23706.1.
    X05094 Genomic DNA. Translation: CAA28745.1.
    X05095 Genomic DNA. Translation: CAA28746.1.
    X05096 Genomic DNA. Translation: CAA28747.1.
    X05097 Genomic DNA. Translation: CAA28748.1.
    X05098 Genomic DNA. Translation: CAA28749.1.
    X05100 Genomic DNA. Translation: CAA28751.1.
    X57263 Genomic DNA. Translation: CAA40537.1.
    X07763 Genomic DNA. Translation: CAA30590.1.
    X07766 Genomic DNA. Translation: CAA30596.1.
    PIRiB26399.
    S14510. HSCH22.
    RefSeqiNP_001073188.1. NM_001079720.1.
    XP_001232985.1. XM_001232984.2.
    XP_001233227.1. XM_001233226.3.
    XP_001233337.1. XM_001233336.3.
    UniGeneiGga.39843.

    Genome annotation databases

    EnsembliENSGALT00000021778; ENSGALP00000021742; ENSGALG00000027174.
    ENSGALT00000042841; ENSGALP00000042437; ENSGALG00000027594.
    ENSGALT00000043224; ENSGALP00000042501; ENSGALG00000027571.
    GeneIDi417956.
    769973.
    770188.
    770267.
    KEGGigga:417956.
    gga:769973.
    gga:770188.
    gga:770267.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    V00415 Genomic DNA. Translation: CAA23706.1 .
    X05094 Genomic DNA. Translation: CAA28745.1 .
    X05095 Genomic DNA. Translation: CAA28746.1 .
    X05096 Genomic DNA. Translation: CAA28747.1 .
    X05097 Genomic DNA. Translation: CAA28748.1 .
    X05098 Genomic DNA. Translation: CAA28749.1 .
    X05100 Genomic DNA. Translation: CAA28751.1 .
    X57263 Genomic DNA. Translation: CAA40537.1 .
    X07763 Genomic DNA. Translation: CAA30590.1 .
    X07766 Genomic DNA. Translation: CAA30596.1 .
    PIRi B26399.
    S14510. HSCH22.
    RefSeqi NP_001073188.1. NM_001079720.1.
    XP_001232985.1. XM_001232984.2.
    XP_001233227.1. XM_001233226.3.
    XP_001233337.1. XM_001233336.3.
    UniGenei Gga.39843.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2ARO X-ray 2.10 B/F 1-126 [» ]
    ProteinModelPortali P0C1H3.
    SMRi P0C1H3. Positions 19-126.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 679231. 3 interactions.
    IntActi P0C1H3. 1 interaction.
    STRINGi 9031.ENSGALP00000037300.

    Proteomic databases

    PaxDbi P0C1H3.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSGALT00000021778 ; ENSGALP00000021742 ; ENSGALG00000027174 .
    ENSGALT00000042841 ; ENSGALP00000042437 ; ENSGALG00000027594 .
    ENSGALT00000043224 ; ENSGALP00000042501 ; ENSGALG00000027571 .
    GeneIDi 417956.
    769973.
    770188.
    770267.
    KEGGi gga:417956.
    gga:769973.
    gga:770188.
    gga:770267.

    Organism-specific databases

    CTDi 417956.
    769973.
    770188.
    770267.

    Phylogenomic databases

    eggNOGi NOG303883.
    GeneTreei ENSGT00720000108413.
    HOGENOMi HOG000231213.
    HOVERGENi HBG007774.
    InParanoidi P0C1H3.
    KOi K11252.
    PhylomeDBi P0C1H3.
    TreeFami TF300212.

    Miscellaneous databases

    EvolutionaryTracei P0C1H3.
    NextBioi 20821182.

    Family and domain databases

    Gene3Di 1.10.20.10. 1 hit.
    InterProi IPR009072. Histone-fold.
    IPR007125. Histone_core_D.
    IPR000558. Histone_H2B.
    [Graphical view ]
    PANTHERi PTHR23428. PTHR23428. 1 hit.
    Pfami PF00125. Histone. 1 hit.
    [Graphical view ]
    PRINTSi PR00621. HISTONEH2B.
    SMARTi SM00427. H2B. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47113. SSF47113. 1 hit.
    PROSITEi PS00357. HISTONE_H2B. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete nucleotide sequence of a chicken H2B histone gene."
      Grandy D.K., Engel J.D., Dodgson J.B.
      J. Biol. Chem. 257:8577-8580(1982) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "Structure and organization of the chicken H2B histone gene family."
      Grandy D.K., Dodgson J.B.
      Nucleic Acids Res. 15:1063-1080(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: White leghorn.
      Tissue: Blood.
    3. "Nucleotide sequence of a member of the chicken H2B histone-encoding gene family."
      Nakayama T., Setoguchi Y.
      Gene 98:299-300(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    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], NOMENCLATURE.
      Strain: White leghorn.
    5. "Conservation of histone H2A/H2B intergene regions: a role for the H2B specific element in divergent transcription."
      Sturm R.A., Dalton S., Wells J.R.E.
      Nucleic Acids Res. 16:8571-8586(1988) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    6. "The complete amino-acid sequence of histone H2B from erythrocytes of the adult domestic fowl Gallus domesticus."
      van Helden P., Strickland W.N., Strickland M., von Holt C.
      Biochim. Biophys. Acta 703:17-20(1982) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 2-126.
    7. "Histone H2B variants from the erythrocytes of an amphibian, a reptile and a bird."
      van Helden P., Strickland W.N., Brandt W.F., von Holt C.
      Biochim. Biophys. Acta 533:278-281(1978) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 2-30 AND 62-90.
      Tissue: Erythrocyte.
    8. "Ubiquitinated histone H2B is preferentially located in transcriptionally active chromatin."
      Nickel B.E., Allis C.D., Davie J.R.
      Biochemistry 28:958-963(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: UBIQUITINATION.
    9. "Apoptotic phosphorylation of histone H2B is mediated by mammalian sterile twenty kinase."
      Cheung W.L., Ajiro K., Samejima K., Kloc M., Cheung P., Mizzen C.A., Beeser A., Etkin L.D., Chernoff J., Earnshaw W.C., Allis C.D.
      Cell 113:507-517(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION AT SER-15.
    10. "Acetylation of histone H2B mirrors that of H4 and H3 at the chicken beta-globin locus but not at housekeeping genes."
      Myers F.A., Chong W., Evans D.R., Thorne A.W., Crane-Robinson C.
      J. Biol. Chem. 278:36315-36322(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: ACETYLATION AT LYS-6; LYS-13; LYS-16 AND LYS-21.
    11. Cited for: FUNCTION AS AN ANTIBIOTIC, IDENTIFICATION BY MASS SPECTROMETRY.
    12. "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).

    Entry informationi

    Entry nameiH2B1_CHICK
    AccessioniPrimary (citable) accession number: P0C1H3
    Secondary accession number(s): P02279, Q92067
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 11, 2006
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 68 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