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P07041

- H3_NEUCR

UniProt

P07041 - H3_NEUCR

Protein

Histone H3

Gene

hh3

Organism
Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 128 (01 Oct 2014)
      Sequence version 3 (23 Jan 2007)
      Previous versions | rss
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    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.

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. protein binding Source: IntAct

    GO - Biological processi

    1. nucleosome assembly Source: InterPro

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Histone H3
    Gene namesi
    Name:hh3
    ORF Names:B7K22.030, NCU01635
    OrganismiNeurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)
    Taxonomic identifieri367110 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaPezizomycotinaSordariomycetesSordariomycetidaeSordarialesSordariaceaeNeurospora
    ProteomesiUP000001805: Chromosome 6, Linkage Group II

    Subcellular locationi

    Nucleus By similarity. Chromosome By similarity

    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 – 11RemovedBy similarity
    Chaini2 – 136135Histone H3PRO_0000221364Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei5 – 51N6,N6,N6-trimethyllysine; alternateBy similarity
    Modified residuei5 – 51N6,N6-dimethyllysine; alternateBy similarity
    Modified residuei5 – 51N6-methyllysine; alternateBy similarity
    Modified residuei10 – 101N6,N6,N6-trimethyllysine; alternate1 Publication
    Modified residuei10 – 101N6-acetyllysine; alternateBy similarity
    Modified residuei11 – 111PhosphoserineBy similarity
    Modified residuei15 – 151N6,N6-dimethyllysine; alternateBy similarity
    Modified residuei15 – 151N6-acetyllysine; alternateBy similarity
    Modified residuei15 – 151N6-methyllysine; alternateBy similarity
    Modified residuei19 – 191N6-acetyllysine; alternateBy similarity
    Modified residuei19 – 191N6-methyllysine; alternateBy similarity
    Modified residuei24 – 241N6-acetyllysine; alternateBy similarity
    Modified residuei24 – 241N6-methyllysine; alternateBy similarity
    Modified residuei28 – 281N6,N6,N6-trimethyllysine; alternateBy similarity
    Modified residuei28 – 281N6,N6-dimethyllysine; alternateBy similarity
    Modified residuei28 – 281N6-acetyllysine; alternateBy similarity
    Modified residuei28 – 281N6-methyllysine; alternateBy similarity
    Modified residuei37 – 371N6,N6,N6-trimethyllysine; alternateBy similarity
    Modified residuei37 – 371N6,N6-dimethyllysine; alternateBy similarity
    Modified residuei37 – 371N6-acetyllysine; alternateBy similarity
    Modified residuei37 – 371N6-methyllysine; alternateBy similarity
    Modified residuei57 – 571N6-acetyllysineBy similarity
    Modified residuei65 – 651N6-acetyllysineBy similarity
    Modified residuei80 – 801N6,N6,N6-trimethyllysine; alternateBy similarity
    Modified residuei80 – 801N6,N6-dimethyllysine; alternateBy similarity
    Modified residuei80 – 801N6-methyllysine; alternateBy similarity

    Post-translational modificationi

    Phosphorylated to form H3S10ph. H3S10ph promotes subsequent H3K14ac formation and is required for transcriptional activation through TBP recruitment to the promoters By similarity.By similarity
    Mono-, di- and trimethylated by the COMPASS complex to form H3K4me1/2/3. H3K4me activates gene expression by regulating transcription elongation and plays a role in telomere length maintenance. H3K4me enrichment correlates with transcription levels, and occurs in a 5' to 3' gradient with H3K4me3 enrichment at the 5'-end of genes, shifting to H3K4me2 and then H3K4me1. Trimethylated by methyltransferase dim-5 to form H3K9me3. H3K9me3, but not H3K9me2, marks chromatin regions for cytosine methylation. Methylated by set-2 to form H3K36me. H3K36me represses gene expression. Methylated by dot-1 to form H3K79me. H3K79me is required for association of SIR proteins with telomeric regions and for telomeric silencing. The COMPASS-mediated formation of H3K4me2/3 and the dot-1-mediated formation of H3K79me require H2BK123ub1 By similarity.By similarity
    Acetylation of histone H3 leads to transcriptional activation. H3K14ac formation by gcn-5 is promoted by H3S10ph. H3K14ac can also be formed by esa-1. H3K56ac formation occurs predominantly in newly synthesized H3 molecules during G1, S and G2/M of the cell cycle and may be involved in DNA repair By similarity.By similarity

    Keywords - PTMi

    Acetylation, Methylation, Phosphoprotein

    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.

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    dim-5Q8X2252EBI-1270655,EBI-1268994

    Protein-protein interaction databases

    DIPiDIP-39601N.
    IntActiP07041. 1 interaction.
    STRINGi5141.NCU01635.1.

    Structurei

    3D structure databases

    ProteinModelPortaliP07041.
    SMRiP07041. Positions 2-135.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the histone H3 family.Curated

    Phylogenomic databases

    eggNOGiCOG2036.
    HOGENOMiHOG000155290.
    KOiK11253.
    OrthoDBiEOG7T4MZ6.

    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.

    P07041-1 [UniParc]FASTAAdd to Basket

    « Hide

    MARTKQTARK STGGKAPRKQ LASKAARKSA PSTGGVKKPH RYKPGTVALR    50
    EIRRYQKSTE LLIRKLPFQR LVREIAQDFK SDLRFQSSAI GALQESVESY 100
    LVSLFEDTNL CAIHAKRVTI QSKDIQLARR LRGERN 136
    Length:136
    Mass (Da):15,392
    Last modified:January 23, 2007 - v3
    Checksum:i9AF51E808E698349
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti92 – 921A → L in CAA25761. (PubMed:6310494)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X01612 Genomic DNA. Translation: CAA25761.1.
    AY062173 Genomic DNA. Translation: AAL38973.1.
    AL670543 Genomic DNA. Translation: CAD21510.1.
    CM002237 Genomic DNA. Translation: EAA26767.1.
    PIRiS07350.
    RefSeqiXP_956003.1. XM_950910.2.
    UniGeneiNcr.23461.

    Genome annotation databases

    EnsemblFungiiEFNCRT00000001782; EFNCRP00000001782; EFNCRG00000001780.
    GeneIDi3872150.
    KEGGincr:NCU01635.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X01612 Genomic DNA. Translation: CAA25761.1 .
    AY062173 Genomic DNA. Translation: AAL38973.1 .
    AL670543 Genomic DNA. Translation: CAD21510.1 .
    CM002237 Genomic DNA. Translation: EAA26767.1 .
    PIRi S07350.
    RefSeqi XP_956003.1. XM_950910.2.
    UniGenei Ncr.23461.

    3D structure databases

    ProteinModelPortali P07041.
    SMRi P07041. Positions 2-135.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-39601N.
    IntActi P07041. 1 interaction.
    STRINGi 5141.NCU01635.1.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii EFNCRT00000001782 ; EFNCRP00000001782 ; EFNCRG00000001780 .
    GeneIDi 3872150.
    KEGGi ncr:NCU01635.

    Phylogenomic databases

    eggNOGi COG2036.
    HOGENOMi HOG000155290.
    KOi K11253.
    OrthoDBi EOG7T4MZ6.

    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. "The genes coding for histone H3 and H4 in Neurospora crassa are unique and contain intervening sequences."
      Woudt L.P., Pastink A., Kempers-Veenstra A.E., Jansen A.E.M., Mager W.H., Planta R.J.
      Nucleic Acids Res. 11:5347-5360(1983) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "Identification and characterization of the genes encoding the core histones and histone variants of Neurospora crassa."
      Hays S.M., Swanson J., Selker E.U.
      Genetics 160:961-973(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. "What's in the genome of a filamentous fungus? Analysis of the Neurospora genome sequence."
      Mannhaupt G., Montrone C., Haase D., Mewes H.-W., Aign V., Hoheisel J.D., Fartmann B., Nyakatura G., Kempken F., Maier J., Schulte U.
      Nucleic Acids Res. 31:1944-1954(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987.
    4. "The genome sequence of the filamentous fungus Neurospora crassa."
      Galagan J.E., Calvo S.E., Borkovich K.A., Selker E.U., Read N.D., Jaffe D.B., FitzHugh W., Ma L.-J., Smirnov S., Purcell S., Rehman B., Elkins T., Engels R., Wang S., Nielsen C.B., Butler J., Endrizzi M., Qui D.
      , Ianakiev P., Bell-Pedersen D., Nelson M.A., Werner-Washburne M., Selitrennikoff C.P., Kinsey J.A., Braun E.L., Zelter A., Schulte U., Kothe G.O., Jedd G., Mewes H.-W., Staben C., Marcotte E., Greenberg D., Roy A., Foley K., Naylor J., Stange-Thomann N., Barrett R., Gnerre S., Kamal M., Kamvysselis M., Mauceli E.W., Bielke C., Rudd S., Frishman D., Krystofova S., Rasmussen C., Metzenberg R.L., Perkins D.D., Kroken S., Cogoni C., Macino G., Catcheside D.E.A., Li W., Pratt R.J., Osmani S.A., DeSouza C.P.C., Glass N.L., Orbach M.J., Berglund J.A., Voelker R., Yarden O., Plamann M., Seiler S., Dunlap J.C., Radford A., Aramayo R., Natvig D.O., Alex L.A., Mannhaupt G., Ebbole D.J., Freitag M., Paulsen I., Sachs M.S., Lander E.S., Nusbaum C., Birren B.W.
      Nature 422:859-868(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987.
    5. "Trimethylated lysine 9 of histone H3 is a mark for DNA methylation in Neurospora crassa."
      Tamaru H., Zhang X., McMillen D., Singh P.B., Nakayama J., Grewal S.I., Allis C.D., Cheng X., Selker E.U.
      Nat. Genet. 34:75-79(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: METHYLATION AT LYS-10.

    Entry informationi

    Entry nameiH3_NEUCR
    AccessioniPrimary (citable) accession number: P07041
    Secondary accession number(s): Q7RV46, Q8WZD9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1988
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 128 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Caution

    To ensure consistency between histone entries, we follow the 'Brno' nomenclature for histone modifications, with positions referring to those used in the literature for the 'closest' model organism. Due to slight variations in histone sequences between organisms and to the presence of initiator methionine in UniProtKB/Swiss-Prot sequences, the actual positions of modified amino acids in the sequence generally differ. In this entry the following conventions are used: H3K4me1/2/3 = mono-, di- and trimethylated Lys-5; H3K9ac = acetylated Lys-10; H3K9me3 = trimethylated Lys-10; H3S10ph = phosphorylated Ser-11; H3K14ac = acetylated Lys-15; H3K14me2 = dimethylated Lys-15; H3K18ac = acetylated Lys-19; H3K18me1 = monomethylated Lys-19; H3K23ac = acetylated Lys-24; H3K23me1 = monomethylated Lys-24; H3K27ac = acetylated Lys-28; H3K27me1/2/3 = mono-, di- and trimethylated Lys-28; H3K36ac = acetylated Lys-37; H3K36me1/2/3 = mono-, di- and trimethylated Lys-37; H3K56ac = acetylated Lys-57; H3K64ac = acetylated Lys-65; H3K79me1/2/3 = mono-, di- and trimethylated Lys-80.Curated

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3