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Q9Z1B8

- PHF1_MOUSE

UniProt

Q9Z1B8 - PHF1_MOUSE

Protein

PHD finger protein 1

Gene

Phf1

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 115 (01 Oct 2014)
      Sequence version 2 (01 Dec 2000)
      Previous versions | rss
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    Functioni

    Polycomb group (PcG) that specifically binds histone H3 trimethylated at 'Lys-36' (H3K36me3) and recruits the PRC2 complex. Involved in DNA damage response and is recruited at double-strand breaks (DSBs). Acts by binding to H3K36me3, a mark for transcriptional activation, and recruiting the PRC2 complex: it is however unclear whether recruitment of the PRC2 complex to H3K36me3 leads to enhance or inhibit H3K27me3 methylation mediated by the PRC2 complex. According to some reports, PRC2 recruitment by PHF1 promotes H3K27me3 and subsequent gene silencing by inducing spreading of PRC2 and H3K27me3 into H3K36me3 loci (PubMed:18086877). According to other reports, PHF1 recruits the PRC2 complex at double-strand breaks (DSBs) and inhibits the activity of PRC2. Regulates p53/TP53 stability and prolonges its turnover: may act by specifically binding to a methylated from of p53/TP53.1 Publication

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri87 – 14256PHD-type 1PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri186 – 24055PHD-type 2PROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

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

    GO - Biological processi

    1. cellular response to DNA damage stimulus Source: UniProtKB
    2. chromatin modification Source: UniProtKB-KW
    3. negative regulation of histone H3-K27 methylation Source: UniProtKB
    4. positive regulation of histone H3-K27 methylation Source: UniProtKB
    5. regulation of transcription, DNA-templated Source: UniProtKB-KW
    6. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Chromatin regulator, Repressor

    Keywords - Biological processi

    DNA damage, Transcription, Transcription regulation

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    ReactomeiREACT_222475. PRC2 methylates histones and DNA.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    PHD finger protein 1
    Short name:
    Protein PHF1
    Alternative name(s):
    Polycomb-like protein 1
    Short name:
    mPCl1
    T-complex testis-expressed 3
    Gene namesi
    Name:Phf1
    Synonyms:Plc1, Tctex-3, Tctex3
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 17

    Organism-specific databases

    MGIiMGI:98647. Phf1.

    Subcellular locationi

    Nucleus 1 Publication. Cytoplasmcytoskeletonmicrotubule organizing centercentrosome By similarity
    Note: Localizes specifically to the promoters of numerous target genes. Localizes to double-strand breaks (DSBs) sites following DNA damage. Colocalizes with NEK6 in the centrosome By similarity.By similarity

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-KW
    2. ESC/E(Z) complex Source: Ensembl
    3. microtubule organizing center Source: UniProtKB-SubCell
    4. nucleus Source: UniProtKB
    5. site of double-strand break Source: UniProtKB

    Keywords - Cellular componenti

    Cytoplasm, Cytoskeleton, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 559559PHD finger protein 1PRO_0000059289Add
    BLAST

    Proteomic databases

    PaxDbiQ9Z1B8.
    PRIDEiQ9Z1B8.

    PTM databases

    PhosphoSiteiQ9Z1B8.

    Expressioni

    Tissue specificityi

    Testis-specific.

    Gene expression databases

    BgeeiQ9Z1B8.
    CleanExiMM_PHF1.
    GenevestigatoriQ9Z1B8.

    Interactioni

    Subunit structurei

    Associated component of the PRC2 complex. Interacts with p53/TP53 By similarity. Interacts with CHMP1.By similarity1 Publication

    Protein-protein interaction databases

    BioGridi204083. 2 interactions.
    IntActiQ9Z1B8. 1 interaction.
    MINTiMINT-4107427.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9Z1B8.
    SMRiQ9Z1B8. Positions 28-147, 186-240.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini29 – 8658TudorAdd
    BLAST

    Domaini

    The Tudor domain recognizes and binds H3K36me3.1 Publication

    Sequence similaritiesi

    Belongs to the Polycomblike family.Curated
    Contains 2 PHD-type zinc fingers.PROSITE-ProRule annotation
    Contains 1 Tudor domain.Curated

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri87 – 14256PHD-type 1PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri186 – 24055PHD-type 2PROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiNOG244542.
    GeneTreeiENSGT00390000009222.
    HOGENOMiHOG000010307.
    HOVERGENiHBG004755.
    InParanoidiQ9Z1B8.
    KOiK11467.
    OMAiGEPPDRS.
    OrthoDBiEOG73V6JJ.
    PhylomeDBiQ9Z1B8.
    TreeFamiTF106420.

    Family and domain databases

    Gene3Di3.30.40.10. 2 hits.
    InterProiIPR025894. Mtf2_C_dom.
    IPR002999. Tudor.
    IPR019786. Zinc_finger_PHD-type_CS.
    IPR011011. Znf_FYVE_PHD.
    IPR001965. Znf_PHD.
    IPR019787. Znf_PHD-finger.
    IPR013083. Znf_RING/FYVE/PHD.
    [Graphical view]
    PfamiPF14061. Mtf2_C. 1 hit.
    PF00628. PHD. 1 hit.
    [Graphical view]
    SMARTiSM00249. PHD. 2 hits.
    SM00333. TUDOR. 1 hit.
    [Graphical view]
    SUPFAMiSSF57903. SSF57903. 2 hits.
    PROSITEiPS01359. ZF_PHD_1. 2 hits.
    PS50016. ZF_PHD_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9Z1B8-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAQLPRLSRL GAPSLWDPAS PAPTSGPRPR LWEGQDVLAR WTDGLLYLGT    50
    IKKVDSAREV CLVQFEDDSQ FLVLWKDISP AALPGEELLC CVCRSETVVP 100
    GNRLVSCEKC RHAYHQDCHV PRAPAPGEGE GASWVCRQCV FAIATKRGGA 150
    LKKGPYARAM LGMKLSLPYG LKGLDWDAGH LSNRQQSYCY CGGPGEWNLK 200
    MLQCRSCLQW FHEACTQCLS KPLLYGDRFY EFECCVCRGG PEKVRRLQLR 250
    WVDVAHLVLY HLSVCCKKKY FDFDREILPF TSENWDSLLL GELSDTPKGE 300
    RSSQLLSALN SHKDRFISGR EIKKRKCLFG LHARTPPPVE LLTGDGAPTS 350
    FPSGQGPGGG VSRPLGKRWR SEPEPLRRRQ KGKVEELGPP TAAHSRHGSR 400
    EQRALQASVS PPPPSPNQSY EGSSGYNFRP TDARCLPSSP IRMFASFHPS 450
    ASTAGTSGDS EPPDRSPLGL HIGFPTDTPK SSPHSVTASS SSVPALTPGF 500
    SRHSPPSPLC RSLSPGTGGG VRGGVSYLSR GDPVRVLARR VRPDGSVQYL 550
    VEWGGGGIF 559
    Length:559
    Mass (Da):61,140
    Last modified:December 1, 2000 - v2
    Checksum:i6D2EE5F53D6164C2
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti249 – 2491L → F in AAD00518. (PubMed:10545244)Curated
    Sequence conflicti344 – 3441G → E in BAA25074. (PubMed:9799836)Curated
    Sequence conflicti377 – 3771R → S in BAA25074. (PubMed:9799836)Curated
    Sequence conflicti555 – 5551G → R in BAA25074. (PubMed:9799836)Curated
    Sequence conflicti558 – 5592IF → HLPDSLLLLPSPFTHWHFHA LDL in BAA25074. (PubMed:9799836)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB011550 mRNA. Translation: BAA25074.1.
    U81490 mRNA. Translation: AAD00518.1.
    CCDSiCCDS37518.1.
    RefSeqiNP_033369.2. NM_009343.2.
    UniGeneiMm.258953.

    Genome annotation databases

    EnsembliENSMUST00000073724; ENSMUSP00000073402; ENSMUSG00000024193.
    GeneIDi21652.
    KEGGimmu:21652.
    UCSCiuc008bes.1. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB011550 mRNA. Translation: BAA25074.1 .
    U81490 mRNA. Translation: AAD00518.1 .
    CCDSi CCDS37518.1.
    RefSeqi NP_033369.2. NM_009343.2.
    UniGenei Mm.258953.

    3D structure databases

    ProteinModelPortali Q9Z1B8.
    SMRi Q9Z1B8. Positions 28-147, 186-240.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 204083. 2 interactions.
    IntActi Q9Z1B8. 1 interaction.
    MINTi MINT-4107427.

    PTM databases

    PhosphoSitei Q9Z1B8.

    Proteomic databases

    PaxDbi Q9Z1B8.
    PRIDEi Q9Z1B8.

    Protocols and materials databases

    DNASUi 21652.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000073724 ; ENSMUSP00000073402 ; ENSMUSG00000024193 .
    GeneIDi 21652.
    KEGGi mmu:21652.
    UCSCi uc008bes.1. mouse.

    Organism-specific databases

    CTDi 5252.
    MGIi MGI:98647. Phf1.

    Phylogenomic databases

    eggNOGi NOG244542.
    GeneTreei ENSGT00390000009222.
    HOGENOMi HOG000010307.
    HOVERGENi HBG004755.
    InParanoidi Q9Z1B8.
    KOi K11467.
    OMAi GEPPDRS.
    OrthoDBi EOG73V6JJ.
    PhylomeDBi Q9Z1B8.
    TreeFami TF106420.

    Enzyme and pathway databases

    Reactomei REACT_222475. PRC2 methylates histones and DNA.

    Miscellaneous databases

    NextBioi 300920.
    PROi Q9Z1B8.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q9Z1B8.
    CleanExi MM_PHF1.
    Genevestigatori Q9Z1B8.

    Family and domain databases

    Gene3Di 3.30.40.10. 2 hits.
    InterProi IPR025894. Mtf2_C_dom.
    IPR002999. Tudor.
    IPR019786. Zinc_finger_PHD-type_CS.
    IPR011011. Znf_FYVE_PHD.
    IPR001965. Znf_PHD.
    IPR019787. Znf_PHD-finger.
    IPR013083. Znf_RING/FYVE/PHD.
    [Graphical view ]
    Pfami PF14061. Mtf2_C. 1 hit.
    PF00628. PHD. 1 hit.
    [Graphical view ]
    SMARTi SM00249. PHD. 2 hits.
    SM00333. TUDOR. 1 hit.
    [Graphical view ]
    SUPFAMi SSF57903. SSF57903. 2 hits.
    PROSITEi PS01359. ZF_PHD_1. 2 hits.
    PS50016. ZF_PHD_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Tctex3, related to Drosophila polycomblike, is expressed in male germ cells and mapped to the mouse T-complex."
      Kawakami S., Mitsunaga K., Kikuti Y.Y., Ando A., Inoko H., Yamamura K., Abe K.
      Mamm. Genome 9:874-880(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Tissue: Testis.
    2. "Misexpression of Polycomb-group proteins in Xenopus alters anterior neural development and represses neural target genes."
      Yoshitake Y., Howard T.L., Christian J.L., Hollenberg S.M.
      Dev. Biol. 215:375-387(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: NIH Swiss.
    3. "CHMP1 is a novel nuclear matrix protein affecting chromatin structure and cell-cycle progression."
      Stauffer D.R., Howard T.L., Nyun T., Hollenberg S.M.
      J. Cell Sci. 114:2383-2393(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH CHMP1.
    4. "Role of hPHF1 in H3K27 methylation and Hox gene silencing."
      Cao R., Wang H., He J., Erdjument-Bromage H., Tempst P., Zhang Y.
      Mol. Cell. Biol. 28:1862-1872(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION.
    5. Cited for: H3K36ME3-BINDING.

    Entry informationi

    Entry nameiPHF1_MOUSE
    AccessioniPrimary (citable) accession number: Q9Z1B8
    Secondary accession number(s): O54808
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 1, 2000
    Last sequence update: December 1, 2000
    Last modified: October 1, 2014
    This is version 115 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

    Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3