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Q8BY87

- UBP47_MOUSE

UniProt

Q8BY87 - UBP47_MOUSE

Protein

Ubiquitin carboxyl-terminal hydrolase 47

Gene

Usp47

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 104 (01 Oct 2014)
      Sequence version 2 (05 Jul 2005)
      Previous versions | rss
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    Functioni

    Ubiquitin-specific protease that specifically deubiquitinates monoubiquitinated DNA polymerase beta (POLB), stabilizing POLB thereby playing a role in base-excision repair (BER) By similarity. Acts as a regulator of cell growth and genome integrity. May also indirectly regulates CDC25A expression at a transcriptional level.By similarity1 Publication

    Catalytic activityi

    Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei197 – 1971NucleophilePROSITE-ProRule annotation
    Active sitei503 – 5031Proton acceptorPROSITE-ProRule annotation

    GO - Molecular functioni

    1. ubiquitin-specific protease activity Source: UniProtKB

    GO - Biological processi

    1. base-excision repair Source: UniProtKB
    2. cellular response to DNA damage stimulus Source: UniProtKB
    3. cellular response to UV Source: UniProtKB
    4. monoubiquitinated protein deubiquitination Source: UniProtKB
    5. negative regulation of apoptotic process Source: Ensembl
    6. negative regulation of cysteine-type endopeptidase activity involved in apoptotic process Source: UniProtKB
    7. negative regulation of G2/M transition of mitotic cell cycle Source: UniProtKB
    8. negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage Source: MGI
    9. negative regulation of transcription, DNA-templated Source: UniProtKB
    10. positive regulation of cell growth Source: UniProtKB
    11. response to drug Source: UniProtKB
    12. ubiquitin-dependent protein catabolic process Source: InterPro

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    DNA damage, DNA repair, Ubl conjugation pathway

    Protein family/group databases

    MEROPSiC19.055.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 47 (EC:3.4.19.12)
    Alternative name(s):
    Deubiquitinating enzyme 47
    Ubiquitin thioesterase 47
    Ubiquitin-specific-processing protease 47
    Gene namesi
    Name:Usp47
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 7

    Organism-specific databases

    MGIiMGI:1922246. Usp47.

    Subcellular locationi

    Cytoplasm By similarity

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB
    2. SCF ubiquitin ligase complex Source: UniProtKB

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 13761376Ubiquitin carboxyl-terminal hydrolase 47PRO_0000080677Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei122 – 1221N6-acetyllysineBy similarity
    Modified residuei832 – 8321PhosphoserineBy similarity
    Modified residuei911 – 9111Phosphoserine1 Publication
    Modified residuei1016 – 10161Phosphothreonine1 Publication

    Keywords - PTMi

    Acetylation, Phosphoprotein

    Proteomic databases

    MaxQBiQ8BY87.
    PaxDbiQ8BY87.
    PRIDEiQ8BY87.

    Expressioni

    Gene expression databases

    BgeeiQ8BY87.
    CleanExiMM_USP47.
    GenevestigatoriQ8BY87.

    Interactioni

    Subunit structurei

    Interacts with BTRC and FBXW11. Interacts with POLB By similarity.By similarity

    Protein-protein interaction databases

    IntActiQ8BY87. 1 interaction.
    MINTiMINT-4110662.
    STRINGi10090.ENSMUSP00000081757.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8BY87.
    SMRiQ8BY87. Positions 182-596.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini188 – 564377USPAdd
    BLAST

    Sequence similaritiesi

    Belongs to the peptidase C19 family. USP47 subfamily.Curated
    Contains 1 USP domain.Curated

    Phylogenomic databases

    eggNOGiCOG5077.
    GeneTreeiENSGT00740000115066.
    HOVERGENiHBG058854.
    InParanoidiQ32NY0.
    KOiK11857.
    OMAiLCEISGI.
    OrthoDBiEOG7M3HZD.
    PhylomeDBiQ8BY87.
    TreeFamiTF314142.

    Family and domain databases

    InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR000626. Ubiquitin-like.
    IPR029071. Ubiquitin-rel_dom.
    IPR028889. UCH/PAN2.
    [Graphical view]
    PfamiPF14560. Ubiquitin_2. 1 hit.
    PF00443. UCH. 1 hit.
    [Graphical view]
    SUPFAMiSSF54236. SSF54236. 1 hit.
    PROSITEiPS00972. USP_1. 1 hit.
    PS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q8BY87-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MVPGEENQLV PKEDVFWRCR QNIFDEMKKK FLQIENAAEE PRVLCIIQDT     50
    TNSKTVSERI TLNLPASTPV RKLFEDVANK VGYINGTFDL TRENGVTTAD 100
    MAPLDHTSDK SLLDANFEPG KKNFLHLTDK DGEPPQMLLE DSNNVDDSVH 150
    DRFIGPLPRE GSVASTNDYV SQNYSYSSIL NKSETGYVGL VNQAMTCYLN 200
    SLLQTLFMTP EFRNALYKWE FEDSEEDPVT SIPYQLQRLF VLLQTSKKRA 250
    IETTDVTRSF GWDSSEAWQQ HDVQELCRVM FDALEQKWKQ TEQADLINEL 300
    YQGKLKDYVR CLECGYEGWR IDTYLDIPLV IRPYGSSQAF ASVEEALHAF 350
    IQPEILDGPN QYFCERCKKK CDARKGLRFL HFPYLLTLQL KRFDFDYTTM 400
    HRIKLNDRMS FPEELDMSTF IDIEDEKSPQ TESCTDSGAE NEGSCHSDQM 450
    SNDFSTDDAV DEGICLESSS GSEKISKPGL EKNSLMYELF SVMVHSGSAA 500
    GGHYYACIKS FSDDQWYSFN DQHVSRITQE DIKKTHGGSS GSRGYYSSAF 550
    ASSTNAYMLI YRLKDPTRNA KFLEVDEYPE HIKNLVQKER ELEEQEKRQR 600
    EIERNTCKIK LFCLHPVKQV MMENKLEVHK DKTLKEAVEM AYKMMDLEDV 650
    IPLDCCRLVK YDEFHDYLER SYEGEEDTPM GLLLGGVKST YMFDLLLETR 700
    KPDQIFQSYK PGEVMVKVHV VDLKAETVAA PVTVRAYLNQ TVTEFKQLIS 750
    KATHLPADSM RIVLERCYND LRLLSMPSKT LKAEGFFRSN KVFVESSETV 800
    DHQAAFTDSH LWKLLDRHAN TIRLFVLLPE QSPGSYSKRT AYQKAGGDSG 850
    NVDDDCERVK GPAGNLKSVD AILEESTEKL KSLSLQQQQQ DGDNGDSSKS 900
    TETSDFENIE SPLNERGSST SVDNRELEQH IQTSDPENFQ SEERSDSDVN 950
    NDRSTSSVDS DILSSSHSSD TLCNADSAQI PLANGLDSHS ITSSRRTKAN 1000
    EGKKETWDTA EEDSGTDSEY DESGKSRGDM QYMYFKADPY TADEGSGEGH 1050
    KWLMVHVDKR ITLAAFKQHL EPFVGVLSSH FKVFRVYTSN QEFETVRLNE 1100
    TLSSFSDDNK ITIRLGRALK KGEYRVKVCQ LLVNEQEPCK FLLDAVFAKG 1150
    MTVRQSKEEL IPQLREQCGL DLSIDRFRLR KKTWKNPGTV FLDYHIYEED 1200
    INISSNWEVF LEVLDGVEKM KSMSQLAILT RRWRPAEMKL DPFQELVLES 1250
    NSVDELREKL SEISGIPLED IEFAKGRGTF PCDISVLDIH QDLDWNPKVS 1300
    TLNVWPLYIC DDGAVIFYRD RTEEVMELTD EQRNELMKKE SSRLQKTGHR 1350
    VTYSPRKEKA LKIYLDGAPN KDVAQD 1376
    Length:1,376
    Mass (Da):157,455
    Last modified:July 5, 2005 - v2
    Checksum:i09729C3B691C3709
    GO
    Isoform 2 (identifier: Q8BY87-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         14-33: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:1,356
    Mass (Da):154,841
    Checksum:i8DB6A4751B43840C
    GO

    Sequence cautioni

    The sequence BAC38411.1 differs from that shown. Reason: Frameshift at position 109.
    The sequence BAC27179.1 differs from that shown. Reason: Erroneous initiation.
    The sequence BAC27195.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti341 – 3411A → G in BAC38411. (PubMed:16141072)Curated
    Sequence conflicti376 – 3794GLRF → VRDL in BAC38411. (PubMed:16141072)Curated
    Sequence conflicti562 – 5621R → G in AAI08426. (PubMed:15489334)Curated
    Sequence conflicti1174 – 11741I → T in AAI08426. (PubMed:15489334)Curated
    Sequence conflicti1178 – 11781R → H in BAC27195. (PubMed:16141072)Curated
    Sequence conflicti1200 – 12034DINI → IYNF in BAC40073. (PubMed:16141072)Curated
    Sequence conflicti1257 – 12571R → Q in BAC27195. (PubMed:16141072)Curated
    Sequence conflicti1299 – 13013VST → TRP in AAH12722. (PubMed:15489334)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei14 – 3320Missing in isoform 2. 1 PublicationVSP_014416Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK030909 mRNA. Translation: BAC27179.1. Different initiation.
    AK030963 mRNA. Translation: BAC27195.1. Different initiation.
    AK041541 mRNA. Translation: BAC30979.1.
    AK082114 mRNA. Translation: BAC38411.1. Frameshift.
    AK087981 mRNA. Translation: BAC40073.1.
    AK131138 mRNA. Translation: BAD21388.1.
    BC012722 mRNA. Translation: AAH12722.1.
    BC024117 mRNA. Translation: AAH24117.1.
    BC089364 mRNA. Translation: AAH89364.1.
    BC108425 mRNA. Translation: AAI08426.1.
    CCDSiCCDS40089.1. [Q8BY87-2]
    RefSeqiNP_598519.2. NM_133758.3. [Q8BY87-2]
    NP_796223.2. NM_177249.3. [Q8BY87-1]
    UniGeneiMm.16974.

    Genome annotation databases

    EnsembliENSMUST00000106653; ENSMUSP00000102264; ENSMUSG00000059263. [Q8BY87-2]
    GeneIDi74996.
    KEGGimmu:74996.
    UCSCiuc009jgg.2. mouse. [Q8BY87-2]
    uc009jgh.2. mouse. [Q8BY87-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK030909 mRNA. Translation: BAC27179.1 . Different initiation.
    AK030963 mRNA. Translation: BAC27195.1 . Different initiation.
    AK041541 mRNA. Translation: BAC30979.1 .
    AK082114 mRNA. Translation: BAC38411.1 . Frameshift.
    AK087981 mRNA. Translation: BAC40073.1 .
    AK131138 mRNA. Translation: BAD21388.1 .
    BC012722 mRNA. Translation: AAH12722.1 .
    BC024117 mRNA. Translation: AAH24117.1 .
    BC089364 mRNA. Translation: AAH89364.1 .
    BC108425 mRNA. Translation: AAI08426.1 .
    CCDSi CCDS40089.1. [Q8BY87-2 ]
    RefSeqi NP_598519.2. NM_133758.3. [Q8BY87-2 ]
    NP_796223.2. NM_177249.3. [Q8BY87-1 ]
    UniGenei Mm.16974.

    3D structure databases

    ProteinModelPortali Q8BY87.
    SMRi Q8BY87. Positions 182-596.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi Q8BY87. 1 interaction.
    MINTi MINT-4110662.
    STRINGi 10090.ENSMUSP00000081757.

    Protein family/group databases

    MEROPSi C19.055.

    Proteomic databases

    MaxQBi Q8BY87.
    PaxDbi Q8BY87.
    PRIDEi Q8BY87.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000106653 ; ENSMUSP00000102264 ; ENSMUSG00000059263 . [Q8BY87-2 ]
    GeneIDi 74996.
    KEGGi mmu:74996.
    UCSCi uc009jgg.2. mouse. [Q8BY87-2 ]
    uc009jgh.2. mouse. [Q8BY87-1 ]

    Organism-specific databases

    CTDi 55031.
    MGIi MGI:1922246. Usp47.

    Phylogenomic databases

    eggNOGi COG5077.
    GeneTreei ENSGT00740000115066.
    HOVERGENi HBG058854.
    InParanoidi Q32NY0.
    KOi K11857.
    OMAi LCEISGI.
    OrthoDBi EOG7M3HZD.
    PhylomeDBi Q8BY87.
    TreeFami TF314142.

    Miscellaneous databases

    NextBioi 341978.
    PROi Q8BY87.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q8BY87.
    CleanExi MM_USP47.
    Genevestigatori Q8BY87.

    Family and domain databases

    InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR000626. Ubiquitin-like.
    IPR029071. Ubiquitin-rel_dom.
    IPR028889. UCH/PAN2.
    [Graphical view ]
    Pfami PF14560. Ubiquitin_2. 1 hit.
    PF00443. UCH. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54236. SSF54236. 1 hit.
    PROSITEi PS00972. USP_1. 1 hit.
    PS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The transcriptional landscape of the mammalian genome."
      Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
      , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
      Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-379 (ISOFORM 1), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-591 (ISOFORM 2), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 637-1376 (ISOFORMS 1/2).
      Strain: C57BL/6J.
      Tissue: Cerebellum and Thymus.
    2. "Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
      Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Kitamura H., Nakagawa T., Nagase T., Ohara O., Koga H.
      DNA Res. 11:127-135(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 395-1376.
      Tissue: Brain.
    3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: C3H/He and Czech II.
      Tissue: Brain, Liver, Mammary gland and Mesenchymal stem cell.
    4. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-911, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Embryonic brain.
    5. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-1016, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Liver.
    6. "The ubiquitin-specific protease USP47 is a novel beta-TRCP interactor regulating cell survival."
      Peschiaroli A., Skaar J.R., Pagano M., Melino G.
      Oncogene 29:1384-1393(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.

    Entry informationi

    Entry nameiUBP47_MOUSE
    AccessioniPrimary (citable) accession number: Q8BY87
    Secondary accession number(s): Q32NY0
    , Q5EBP2, Q6KAR9, Q80V06, Q8BHU1, Q8BI15, Q8BI16, Q8BUW4, Q91X25
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 5, 2005
    Last sequence update: July 5, 2005
    Last modified: October 1, 2014
    This is version 104 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. Peptidase families
      Classification of peptidase families and list of entries
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3