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PHF1_MOUSE
ID   PHF1_MOUSE              Reviewed;         559 AA.
AC   Q9Z1B8; O54808;
DT   01-DEC-2000, integrated into UniProtKB/Swiss-Prot.
DT   01-DEC-2000, sequence version 2.
DT   03-AUG-2022, entry version 167.
DE   RecName: Full=PHD finger protein 1;
DE            Short=Protein PHF1;
DE   AltName: Full=Polycomb-like protein 1;
DE            Short=mPCl1;
DE   AltName: Full=T-complex testis-expressed 3;
GN   Name=Phf1; Synonyms=Plc1, Tctex-3, Tctex3;
OS   Mus musculus (Mouse).
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC   Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC   Murinae; Mus; Mus.
OX   NCBI_TaxID=10090;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [MRNA].
RC   TISSUE=Testis;
RX   PubMed=9799836; DOI=10.1007/s003359900886;
RA   Kawakami S., Mitsunaga K., Kikuti Y.Y., Ando A., Inoko H., Yamamura K.,
RA   Abe K.;
RT   "Tctex3, related to Drosophila polycomblike, is expressed in male germ
RT   cells and mapped to the mouse T-complex.";
RL   Mamm. Genome 9:874-880(1998).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [MRNA].
RC   STRAIN=NIH Swiss;
RX   PubMed=10545244; DOI=10.1006/dbio.1999.9473;
RA   Yoshitake Y., Howard T.L., Christian J.L., Hollenberg S.M.;
RT   "Misexpression of Polycomb-group proteins in Xenopus alters anterior neural
RT   development and represses neural target genes.";
RL   Dev. Biol. 215:375-387(1999).
RN   [3]
RP   INTERACTION WITH CHMP1.
RX   PubMed=11559747; DOI=10.1242/jcs.114.13.2383;
RA   Stauffer D.R., Howard T.L., Nyun T., Hollenberg S.M.;
RT   "CHMP1 is a novel nuclear matrix protein affecting chromatin structure and
RT   cell-cycle progression.";
RL   J. Cell Sci. 114:2383-2393(2001).
RN   [4]
RP   FUNCTION, AND SUBCELLULAR LOCATION.
RX   PubMed=18086877; DOI=10.1128/mcb.01589-07;
RA   Cao R., Wang H., He J., Erdjument-Bromage H., Tempst P., Zhang Y.;
RT   "Role of hPHF1 in H3K27 methylation and Hox gene silencing.";
RL   Mol. Cell. Biol. 28:1862-1872(2008).
RN   [5]
RP   IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC   TISSUE=Testis;
RX   PubMed=21183079; DOI=10.1016/j.cell.2010.12.001;
RA   Huttlin E.L., Jedrychowski M.P., Elias J.E., Goswami T., Rad R.,
RA   Beausoleil S.A., Villen J., Haas W., Sowa M.E., Gygi S.P.;
RT   "A tissue-specific atlas of mouse protein phosphorylation and expression.";
RL   Cell 143:1174-1189(2010).
RN   [6]
RP   H3K36ME3-BINDING.
RX   PubMed=23104054; DOI=10.1038/nsmb.2434;
RA   Ballare C., Lange M., Lapinaite A., Martin G.M., Morey L., Pascual G.,
RA   Liefke R., Simon B., Shi Y., Gozani O., Carlomagno T., Benitah S.A.,
RA   Di Croce L.;
RT   "Phf19 links methylated Lys36 of histone H3 to regulation of Polycomb
RT   activity.";
RL   Nat. Struct. Mol. Biol. 19:1257-1265(2012).
CC   -!- FUNCTION: Polycomb group (PcG) that specifically binds histone H3
CC       trimethylated at 'Lys-36' (H3K36me3) and recruits the PRC2 complex.
CC       Involved in DNA damage response and is recruited at double-strand
CC       breaks (DSBs). Acts by binding to H3K36me3, a mark for transcriptional
CC       activation, and recruiting the PRC2 complex: it is however unclear
CC       whether recruitment of the PRC2 complex to H3K36me3 leads to enhance or
CC       inhibit H3K27me3 methylation mediated by the PRC2 complex. According to
CC       some reports, PRC2 recruitment by PHF1 promotes H3K27me3 and subsequent
CC       gene silencing by inducing spreading of PRC2 and H3K27me3 into H3K36me3
CC       loci (PubMed:18086877). According to other reports, PHF1 recruits the
CC       PRC2 complex at double-strand breaks (DSBs) and inhibits the activity
CC       of PRC2. Regulates p53/TP53 stability and prolonges its turnover: may
CC       act by specifically binding to a methylated from of p53/TP53.
CC       {ECO:0000269|PubMed:18086877}.
CC   -!- SUBUNIT: Associated component of the PRC2 complex. Interacts with
CC       p53/TP53 (By similarity). Interacts with CHMP1. {ECO:0000250,
CC       ECO:0000269|PubMed:11559747}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:18086877}. Cytoplasm,
CC       cytoskeleton, microtubule organizing center, centrosome {ECO:0000250}.
CC       Note=Localizes specifically to the promoters of numerous target genes.
CC       Localizes to double-strand breaks (DSBs) sites following DNA damage.
CC       Colocalizes with NEK6 in the centrosome (By similarity). {ECO:0000250}.
CC   -!- TISSUE SPECIFICITY: Testis-specific.
CC   -!- DOMAIN: The Tudor domain recognizes and binds H3K36me3.
CC       {ECO:0000269|PubMed:23104054}.
CC   -!- SIMILARITY: Belongs to the Polycomblike family. {ECO:0000305}.
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DR   EMBL; AB011550; BAA25074.1; -; mRNA.
DR   EMBL; U81490; AAD00518.1; -; mRNA.
DR   CCDS; CCDS37518.1; -.
DR   RefSeq; NP_033369.2; NM_009343.3.
DR   PDB; 5XFQ; X-ray; 2.40 A; A/B=25-360.
DR   PDBsum; 5XFQ; -.
DR   AlphaFoldDB; Q9Z1B8; -.
DR   BMRB; Q9Z1B8; -.
DR   SMR; Q9Z1B8; -.
DR   BioGRID; 204083; 3.
DR   IntAct; Q9Z1B8; 2.
DR   STRING; 10090.ENSMUSP00000073402; -.
DR   iPTMnet; Q9Z1B8; -.
DR   PhosphoSitePlus; Q9Z1B8; -.
DR   EPD; Q9Z1B8; -.
DR   MaxQB; Q9Z1B8; -.
DR   PaxDb; Q9Z1B8; -.
DR   PeptideAtlas; Q9Z1B8; -.
DR   PRIDE; Q9Z1B8; -.
DR   ProteomicsDB; 288196; -.
DR   Antibodypedia; 14271; 253 antibodies from 28 providers.
DR   DNASU; 21652; -.
DR   Ensembl; ENSMUST00000073724; ENSMUSP00000073402; ENSMUSG00000024193.
DR   GeneID; 21652; -.
DR   KEGG; mmu:21652; -.
DR   UCSC; uc008bes.2; mouse.
DR   CTD; 5252; -.
DR   MGI; MGI:98647; Phf1.
DR   VEuPathDB; HostDB:ENSMUSG00000024193; -.
DR   eggNOG; KOG4323; Eukaryota.
DR   GeneTree; ENSGT00950000183180; -.
DR   HOGENOM; CLU_032773_2_0_1; -.
DR   InParanoid; Q9Z1B8; -.
DR   OMA; QPWEPTP; -.
DR   OrthoDB; 281828at2759; -.
DR   PhylomeDB; Q9Z1B8; -.
DR   TreeFam; TF106420; -.
DR   Reactome; R-MMU-212300; PRC2 methylates histones and DNA.
DR   BioGRID-ORCS; 21652; 5 hits in 74 CRISPR screens.
DR   ChiTaRS; Phf1; mouse.
DR   PRO; PR:Q9Z1B8; -.
DR   Proteomes; UP000000589; Chromosome 17.
DR   RNAct; Q9Z1B8; protein.
DR   Bgee; ENSMUSG00000024193; Expressed in granulocyte and 206 other tissues.
DR   ExpressionAtlas; Q9Z1B8; baseline and differential.
DR   Genevisible; Q9Z1B8; MM.
DR   GO; GO:0005813; C:centrosome; ISO:MGI.
DR   GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-KW.
DR   GO; GO:0035098; C:ESC/E(Z) complex; IDA:MGI.
DR   GO; GO:0005654; C:nucleoplasm; ISO:MGI.
DR   GO; GO:0005634; C:nucleus; ISS:UniProtKB.
DR   GO; GO:0035861; C:site of double-strand break; ISS:UniProtKB.
DR   GO; GO:0003682; F:chromatin binding; ISO:MGI.
DR   GO; GO:0003677; F:DNA binding; IBA:GO_Central.
DR   GO; GO:1990226; F:histone methyltransferase binding; ISO:MGI.
DR   GO; GO:0042802; F:identical protein binding; ISO:MGI.
DR   GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR   GO; GO:0035064; F:methylated histone binding; IDA:UniProtKB.
DR   GO; GO:0001222; F:transcription corepressor binding; ISO:MGI.
DR   GO; GO:0006974; P:cellular response to DNA damage stimulus; ISS:UniProtKB.
DR   GO; GO:0006325; P:chromatin organization; IBA:GO_Central.
DR   GO; GO:0061086; P:negative regulation of histone H3-K27 methylation; ISS:UniProtKB.
DR   GO; GO:0061087; P:positive regulation of histone H3-K27 methylation; ISS:UniProtKB.
DR   GO; GO:0006355; P:regulation of transcription, DNA-templated; IBA:GO_Central.
DR   Gene3D; 3.30.40.10; -; 1.
DR   InterPro; IPR040477; KDM4_Tudor_2.
DR   InterPro; IPR025894; Mtf2_C_dom.
DR   InterPro; IPR031202; PHF1.
DR   InterPro; IPR002999; Tudor.
DR   InterPro; IPR019786; Zinc_finger_PHD-type_CS.
DR   InterPro; IPR011011; Znf_FYVE_PHD.
DR   InterPro; IPR001965; Znf_PHD.
DR   InterPro; IPR019787; Znf_PHD-finger.
DR   InterPro; IPR013083; Znf_RING/FYVE/PHD.
DR   PANTHER; PTHR12628:SF11; PTHR12628:SF11; 1.
DR   Pfam; PF14061; Mtf2_C; 1.
DR   Pfam; PF00628; PHD; 1.
DR   Pfam; PF18104; Tudor_2; 1.
DR   SMART; SM00249; PHD; 2.
DR   SMART; SM00333; TUDOR; 1.
DR   SUPFAM; SSF57903; SSF57903; 2.
DR   PROSITE; PS01359; ZF_PHD_1; 2.
DR   PROSITE; PS50016; ZF_PHD_2; 1.
PE   1: Evidence at protein level;
KW   3D-structure; Chromatin regulator; Cytoplasm; Cytoskeleton; DNA damage;
KW   Metal-binding; Nucleus; Reference proteome; Repeat; Repressor;
KW   Transcription; Transcription regulation; Zinc; Zinc-finger.
FT   CHAIN           1..559
FT                   /note="PHD finger protein 1"
FT                   /id="PRO_0000059289"
FT   DOMAIN          29..86
FT                   /note="Tudor"
FT   ZN_FING         87..142
FT                   /note="PHD-type 1"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00146"
FT   ZN_FING         186..240
FT                   /note="PHD-type 2"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00146"
FT   REGION          338..434
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          448..526
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        367..385
FT                   /note="Basic and acidic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        478..498
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   CONFLICT        249
FT                   /note="L -> F (in Ref. 2; AAD00518)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        344
FT                   /note="G -> E (in Ref. 1; BAA25074)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        377
FT                   /note="R -> S (in Ref. 1; BAA25074)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        555
FT                   /note="G -> R (in Ref. 1; BAA25074)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        558..559
FT                   /note="IF -> HLPDSLLLLPSPFTHWHFHALDL (in Ref. 1; BAA25074)"
FT                   /evidence="ECO:0000305"
FT   STRAND          36..40
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          46..55
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            56..59
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          60..65
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          70..74
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           75..77
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          78..80
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            91..93
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          104..106
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            108..110
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          113..115
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           116..118
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          119..121
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          126..130
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           137..144
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           155..164
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           171..173
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            189..191
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            197..200
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          201..204
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            205..207
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          210..212
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           213..215
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          230..233
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           235..238
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          243..246
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           251..265
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            273..276
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           277..283
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            285..288
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           291..293
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           298..311
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   TURN            313..315
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          316..318
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   HELIX           319..322
FT                   /evidence="ECO:0007829|PDB:5XFQ"
FT   STRAND          328..334
FT                   /evidence="ECO:0007829|PDB:5XFQ"
SQ   SEQUENCE   559 AA;  61140 MW;  6D2EE5F53D6164C2 CRC64;
     MAQLPRLSRL GAPSLWDPAS PAPTSGPRPR LWEGQDVLAR WTDGLLYLGT IKKVDSAREV
     CLVQFEDDSQ FLVLWKDISP AALPGEELLC CVCRSETVVP GNRLVSCEKC RHAYHQDCHV
     PRAPAPGEGE GASWVCRQCV FAIATKRGGA LKKGPYARAM LGMKLSLPYG LKGLDWDAGH
     LSNRQQSYCY CGGPGEWNLK MLQCRSCLQW FHEACTQCLS KPLLYGDRFY EFECCVCRGG
     PEKVRRLQLR WVDVAHLVLY HLSVCCKKKY FDFDREILPF TSENWDSLLL GELSDTPKGE
     RSSQLLSALN SHKDRFISGR EIKKRKCLFG LHARTPPPVE LLTGDGAPTS FPSGQGPGGG
     VSRPLGKRWR SEPEPLRRRQ KGKVEELGPP TAAHSRHGSR EQRALQASVS PPPPSPNQSY
     EGSSGYNFRP TDARCLPSSP IRMFASFHPS ASTAGTSGDS EPPDRSPLGL HIGFPTDTPK
     SSPHSVTASS SSVPALTPGF SRHSPPSPLC RSLSPGTGGG VRGGVSYLSR GDPVRVLARR
     VRPDGSVQYL VEWGGGGIF
 
 
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