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P50947

- PHO23_YEAST

UniProt

P50947 - PHO23_YEAST

Protein

Transcriptional regulatory protein PHO23

Gene

PHO23

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 133 (01 Oct 2014)
      Sequence version 1 (01 Oct 1996)
      Previous versions | rss
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    Functioni

    Component of the RPD3C(L) histone deacetylase complex (HDAC) responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events.3 Publications

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei282 – 2821Histone H3K4me3By similarity
    Binding sitei293 – 2931Histone H3K4me3By similarity
    Binding sitei297 – 2971Histone H3K4me3By similarity
    Binding sitei305 – 3051Histone H3K4me3By similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri280 – 32950PHD-typePROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. methylated histone binding Source: UniProtKB
    2. zinc ion binding Source: InterPro

    GO - Biological processi

    1. chromatin modification Source: SGD
    2. negative regulation of chromatin silencing at rDNA Source: SGD
    3. negative regulation of chromatin silencing at silent mating-type cassette Source: SGD
    4. negative regulation of chromatin silencing at telomere Source: SGD
    5. negative regulation of transcription from RNA polymerase I promoter Source: SGD
    6. positive regulation of transcription from RNA polymerase II promoter Source: SGD
    7. positive regulation of transcription from RNA polymerase II promoter in response to heat stress Source: SGD
    8. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Chromatin regulator, Repressor

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    BioCyciYEAST:G3O-33125-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Transcriptional regulatory protein PHO23
    Gene namesi
    Name:PHO23
    Ordered Locus Names:YNL097C
    ORF Names:N2205
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XIV

    Organism-specific databases

    CYGDiYNL097c.
    SGDiS000005041. PHO23.

    Subcellular locationi

    Nucleus 1 Publication

    GO - Cellular componenti

    1. histone deacetylase complex Source: SGD
    2. Rpd3L complex Source: SGD

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 330330Transcriptional regulatory protein PHO23PRO_0000203440Add
    BLAST

    Proteomic databases

    MaxQBiP50947.
    PaxDbiP50947.

    Expressioni

    Gene expression databases

    GenevestigatoriP50947.

    Interactioni

    Subunit structurei

    Interacts with H3K4me3 and to a lesser extent with H3K4me2. Component of the RPD3C(L) complex composed of at least ASH1, CTI6, DEP1, PHO23, RPD3, RXT2, RXT3, SAP30, SDS3, SIN3, UME1 and UME6.5 Publications

    Protein-protein interaction databases

    BioGridi35726. 509 interactions.
    DIPiDIP-4243N.
    IntActiP50947. 7 interactions.
    MINTiMINT-496149.
    STRINGi4932.YNL097C.

    Structurei

    3D structure databases

    ProteinModelPortaliP50947.
    SMRiP50947. Positions 278-326.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domaini

    The PHD-type zinc finger mediates the binding to H3K4me3.1 Publication

    Sequence similaritiesi

    Belongs to the ING family.Curated
    Contains 1 PHD-type zinc finger.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri280 – 32950PHD-typePROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiCOG5034.
    GeneTreeiENSGT00550000074538.
    HOGENOMiHOG000248215.
    OMAiELMPCLE.
    OrthoDBiEOG7G1VHM.

    Family and domain databases

    Gene3Di3.30.40.10. 1 hit.
    InterProiIPR028651. ING_fam.
    IPR024610. ING_N.
    IPR019786. Zinc_finger_PHD-type_CS.
    IPR011011. Znf_FYVE_PHD.
    IPR001965. Znf_PHD.
    IPR019787. Znf_PHD-finger.
    IPR013083. Znf_RING/FYVE/PHD.
    [Graphical view]
    PANTHERiPTHR10333. PTHR10333. 1 hit.
    PfamiPF12998. ING. 1 hit.
    PF00628. PHD. 1 hit.
    [Graphical view]
    SMARTiSM00249. PHD. 1 hit.
    [Graphical view]
    SUPFAMiSSF57903. SSF57903. 1 hit.
    PROSITEiPS01359. ZF_PHD_1. 1 hit.
    PS50016. ZF_PHD_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P50947-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSSPANLFPG LNDITDVLEE FPLATSRYLT LLHEIDAKCV HSMPNLNERI    50
    DKFLKKDFNK DHQTQVRLLN NINKIYEELM PSLEEKMHVS SIMLDNLDRL 100
    TSRLELAYEV AIKNTEIPRG LRLGVDNHPA MHLHHELMEK IESKSNSKSS 150
    QALKSESRRE AMAANRRQGE HYSASTHQQD DSKNDANYGG SRHESQDHTG 200
    NNTNSRKRAN AANTNNADPE TKKRKRRVAT TAVSPSTIST ATAVNNGRIG 250
    TSTASRGVSS VGNSNNSRIS RPKTNDYGEP LYCYCNQVAY GEMVGCDGAD 300
    CELEWFHLPC IGLETLPKGK WYCDDCKKKL 330
    Length:330
    Mass (Da):37,024
    Last modified:October 1, 1996 - v1
    Checksum:i3BF7B519E77ED6EF
    GO

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti8 – 81F → L in strain: SK1. 1 Publication
    Natural varianti35 – 351I → V in strain: SK1. 1 Publication

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    DQ115393 Genomic DNA. Translation: AAZ22511.1.
    Z50161 Genomic DNA. Translation: CAA90529.1.
    AY693076 Genomic DNA. Translation: AAT93095.1.
    Z71373 Genomic DNA. Translation: CAA95973.1.
    BK006947 Genomic DNA. Translation: DAA10449.1.
    PIRiS58255.
    RefSeqiNP_014302.3. NM_001182935.3.

    Genome annotation databases

    EnsemblFungiiYNL097C; YNL097C; YNL097C.
    GeneIDi855626.
    KEGGisce:YNL097C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    DQ115393 Genomic DNA. Translation: AAZ22511.1 .
    Z50161 Genomic DNA. Translation: CAA90529.1 .
    AY693076 Genomic DNA. Translation: AAT93095.1 .
    Z71373 Genomic DNA. Translation: CAA95973.1 .
    BK006947 Genomic DNA. Translation: DAA10449.1 .
    PIRi S58255.
    RefSeqi NP_014302.3. NM_001182935.3.

    3D structure databases

    ProteinModelPortali P50947.
    SMRi P50947. Positions 278-326.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 35726. 509 interactions.
    DIPi DIP-4243N.
    IntActi P50947. 7 interactions.
    MINTi MINT-496149.
    STRINGi 4932.YNL097C.

    Proteomic databases

    MaxQBi P50947.
    PaxDbi P50947.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YNL097C ; YNL097C ; YNL097C .
    GeneIDi 855626.
    KEGGi sce:YNL097C.

    Organism-specific databases

    CYGDi YNL097c.
    SGDi S000005041. PHO23.

    Phylogenomic databases

    eggNOGi COG5034.
    GeneTreei ENSGT00550000074538.
    HOGENOMi HOG000248215.
    OMAi ELMPCLE.
    OrthoDBi EOG7G1VHM.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-33125-MONOMER.

    Miscellaneous databases

    NextBioi 979828.
    PROi P50947.

    Gene expression databases

    Genevestigatori P50947.

    Family and domain databases

    Gene3Di 3.30.40.10. 1 hit.
    InterProi IPR028651. ING_fam.
    IPR024610. ING_N.
    IPR019786. Zinc_finger_PHD-type_CS.
    IPR011011. Znf_FYVE_PHD.
    IPR001965. Znf_PHD.
    IPR019787. Znf_PHD-finger.
    IPR013083. Znf_RING/FYVE/PHD.
    [Graphical view ]
    PANTHERi PTHR10333. PTHR10333. 1 hit.
    Pfami PF12998. ING. 1 hit.
    PF00628. PHD. 1 hit.
    [Graphical view ]
    SMARTi SM00249. PHD. 1 hit.
    [Graphical view ]
    SUPFAMi SSF57903. SSF57903. 1 hit.
    PROSITEi PS01359. ZF_PHD_1. 1 hit.
    PS50016. ZF_PHD_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Quantitative trait loci mapped to single-nucleotide resolution in yeast."
      Deutschbauer A.M., Davis R.W.
      Nat. Genet. 37:1333-1340(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANTS LEU-8 AND VAL-35.
      Strain: SK1.
    2. "The sequence of a 21.3 kb DNA fragment from the left arm of yeast chromosome XIV reveals LEU4, MET4, POL1, RAS2, and six new open reading frames."
      Saiz J.E., Buitrago M.J., Soler A., del Rey F., Revuelta J.L.
      Yeast 12:403-409(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 96604 / S288c / FY1679.
    3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications."
      Philippsen P., Kleine K., Poehlmann R., Duesterhoeft A., Hamberg K., Hegemann J.H., Obermaier B., Urrestarazu L.A., Aert R., Albermann K., Altmann R., Andre B., Baladron V., Ballesta J.P.G., Becam A.-M., Beinhauer J.D., Boskovic J., Buitrago M.J.
      , Bussereau F., Coster F., Crouzet M., D'Angelo M., Dal Pero F., De Antoni A., del Rey F., Doignon F., Domdey H., Dubois E., Fiedler T.A., Fleig U., Floeth M., Fritz C., Gaillardin C., Garcia-Cantalejo J.M., Glansdorff N., Goffeau A., Gueldener U., Herbert C.J., Heumann K., Heuss-Neitzel D., Hilbert H., Hinni K., Iraqui Houssaini I., Jacquet M., Jimenez A., Jonniaux J.-L., Karpfinger-Hartl L., Lanfranchi G., Lepingle A., Levesque H., Lyck R., Maftahi M., Mallet L., Maurer C.T.C., Messenguy F., Mewes H.-W., Moestl D., Nasr F., Nicaud J.-M., Niedenthal R.K., Pandolfo D., Pierard A., Piravandi E., Planta R.J., Pohl T.M., Purnelle B., Rebischung C., Remacha M.A., Revuelta J.L., Rinke M., Saiz J.E., Sartorello F., Scherens B., Sen-Gupta M., Soler-Mira A., Urbanus J.H.M., Valle G., Van Dyck L., Verhasselt P., Vierendeels F., Vissers S., Voet M., Volckaert G., Wach A., Wambutt R., Wedler H., Zollner A., Hani J.
      Nature 387:93-98(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    5. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    6. "Sequence analysis of a 14.2 kb fragment of Saccharomyces cerevisiae chromosome XIV that includes the ypt53, tRNALeu and gsr m2 genes and four new open reading frames."
      Garcia-Cantalejo J.M., Boskovic J., Jimenez A.
      Yeast 12:599-608(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-20.
    7. "Three yeast proteins related to the human candidate tumor suppressor p33(ING1) are associated with histone acetyltransferase activities."
      Loewith R., Meijer M., Lees-Miller S.P., Riabowol K., Young D.
      Mol. Cell. Biol. 20:3807-3816(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    8. "Pho23 is associated with the Rpd3 histone deacetylase and is required for its normal function in regulation of gene expression and silencing in Saccharomyces cerevisiae."
      Loewith R., Smith J.S., Meijer M., Williams T.J., Bachman N., Boeke J.D., Young D.
      J. Biol. Chem. 276:24068-24074(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, IDENTIFICATION IN THE RPD3 COMPLEX.
    9. "Opposite role of yeast ING family members in p53-dependent transcriptional activation."
      Nourani A., Howe L., Pray-Grant M.G., Workman J.L., Grant P.A., Cote J.
      J. Biol. Chem. 278:19171-19175(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, IDENTIFICATION IN THE RPD3 COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    10. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    11. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    12. "Stable incorporation of sequence specific repressors Ash1 and Ume6 into the Rpd3L complex."
      Carrozza M.J., Florens L., Swanson S.K., Shia W.-J., Anderson S., Yates J., Washburn M.P., Workman J.L.
      Biochim. Biophys. Acta 1731:77-87(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION IN THE RPD3C(L) COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    13. Cited for: IDENTIFICATION IN THE RPD3C(L) COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    14. Cited for: DOMAIN PHD-TYPE ZINC-FINGER, INTERACTION WITH HISTONES H3K4ME3 AND H3K4ME2.
    15. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
      Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
      Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiPHO23_YEAST
    AccessioniPrimary (citable) accession number: P50947
    Secondary accession number(s): D6W183, Q45TZ9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1996
    Last sequence update: October 1, 1996
    Last modified: October 1, 2014
    This is version 133 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 3250 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    3. Yeast chromosome XIV
      Yeast (Saccharomyces cerevisiae) chromosome XIV: entries and gene names

    External Data

    Dasty 3