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Q5I043

- UBP28_MOUSE

UniProt

Q5I043 - UBP28_MOUSE

Protein

Ubiquitin carboxyl-terminal hydrolase 28

Gene

Usp28

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 86 (01 Oct 2014)
      Sequence version 1 (15 Feb 2005)
      Previous versions | rss
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    Functioni

    Deubiquitinase involved in DNA damage response checkpoint and MYC proto-oncogene stability. Involved in DNA damage induced apoptosis by specifically deubiquitinating proteins of the DNA damage pathway such as CLSPN. Also involved in G2 DNA damage checkpoint, by deubiquitinating CLSPN, and preventing its degradation by the anaphase promoting complex/cyclosome (APC/C). In contrast, it does not deubiquitinate PLK1. Specifically deubiquitinates MYC in the nucleoplasm, leading to prevent MYC degradation by the proteasome: acts by specifically interacting with FBXW7 (FBW7alpha) in the nucleoplasm and counteracting ubiquitination of MYC by the SCF(FBXW7) complex By similarity.By similarity

    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 sitei171 – 1711NucleophilePROSITE-ProRule annotation
    Active sitei605 – 6051Proton acceptorPROSITE-ProRule annotation

    GO - Molecular functioni

    1. ubiquitin-specific protease activity Source: UniProtKB
    2. ubiquitin thiolesterase activity Source: UniProtKB

    GO - Biological processi

    1. cell proliferation Source: UniProtKB
    2. cellular response to UV Source: Ensembl
    3. DNA damage checkpoint Source: UniProtKB
    4. DNA repair Source: UniProtKB-KW
    5. intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator Source: UniProtKB
    6. protein deubiquitination Source: UniProtKB
    7. response to ionizing radiation Source: UniProtKB
    8. 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

    MEROPSiC19.054.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 28 (EC:3.4.19.12)
    Alternative name(s):
    Deubiquitinating enzyme 28
    Ubiquitin thioesterase 28
    Ubiquitin-specific-processing protease 28
    Gene namesi
    Name:Usp28
    Synonyms:Kiaa1515
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 9

    Organism-specific databases

    MGIiMGI:2442293. Usp28.

    Subcellular locationi

    Nucleusnucleoplasm By similarity

    GO - Cellular componenti

    1. nucleolus Source: Ensembl
    2. nucleoplasm Source: UniProtKB
    3. protein complex Source: Ensembl

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 10511051Ubiquitin carboxyl-terminal hydrolase 28PRO_0000080658Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei67 – 671PhosphoserineBy similarity
    Modified residuei720 – 7201PhosphoserineBy similarity

    Post-translational modificationi

    Degradaded upon nickel ion level or hypoxia exposure.By similarity
    Phosphorylated upon DNA damage at Ser-67 and Ser-720, by ATM or ATR.By similarity

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiQ5I043.
    PaxDbiQ5I043.
    PRIDEiQ5I043.

    PTM databases

    PhosphoSiteiQ5I043.

    Expressioni

    Gene expression databases

    ArrayExpressiQ5I043.
    BgeeiQ5I043.
    CleanExiMM_USP28.
    GenevestigatoriQ5I043.

    Interactioni

    Subunit structurei

    Interacts with FBXW7; following DNA damage, dissociates from FBXW7 leading to degradation of MYC.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5I043.
    SMRiQ5I043. Positions 22-132, 162-402, 576-656.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Repeati97 – 11620UIMAdd
    BLAST
    Domaini162 – 655494USPAdd
    BLAST

    Sequence similaritiesi

    Belongs to the peptidase C19 family. USP28 subfamily.Curated
    Contains 1 USP domain.Curated

    Phylogenomic databases

    eggNOGiCOG5077.
    GeneTreeiENSGT00390000016082.
    HOGENOMiHOG000007956.
    HOVERGENiHBG056030.
    InParanoidiQ5I043.
    KOiK11849.
    OMAiCIASTTQ.
    OrthoDBiEOG761BSZ.
    PhylomeDBiQ5I043.
    TreeFamiTF329035.

    Family and domain databases

    InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR009060. UBA-like.
    IPR003903. Ubiquitin-int_motif.
    IPR028889. UCH/PAN2.
    [Graphical view]
    PfamiPF00443. UCH. 1 hit.
    [Graphical view]
    SMARTiSM00726. UIM. 1 hit.
    [Graphical view]
    SUPFAMiSSF46934. SSF46934. 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: Q5I043-1) [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

    MTAELQQDDS AGAADGHGSS CQMLLNQLRE ITGIQDPSFL HEALKASNGD     50
    ITQAVSLLTD QRVKEPSHDT TAAEPSEVEE SATSKDLLAK VIDLTHDNKD 100
    DLQAAIALSL LESPNIQADN RDLNRAHEAN SAETKRSKRK RCEVWGENHN 150
    PNNWRRVDGW PVGLKNVGNT CWFSAVIQSL FQLPEFRRLV LSYNLPQNIL 200
    ENCRSHTEKR NIMFMQELQY LFALLLGSNR KFVDPSAALD LLKGAFRSSE 250
    EQQQDVSEFT HKLLDWLEDA FQLAVNVNSH LRNKSENPMV QLFYGTFLTE 300
    GVREGKPFCN NETFGQYPLQ VNGYHNLDEC LEGAMVEGDI ALLPSDRSVK 350
    YGQERWFTKL PPVLTFELSR FEFNQSLGQP EKIHNKLEFP QIIYMDRYMY 400
    KSKELIRSKR ESVRKLKEEI QVLQQKLERY VKYGSGPSRF PLPDMLKYVI 450
    EFASTKPASE SCLSGSAEHV TLPLPSVHCP ISDLTPKESS SPESCSQNAG 500
    STFSSPEDAL PSSEGMNGPF TSPHSSLETP APPAPRTVTD EEMNFVKTCL 550
    QRWRSEIEQD IQDLKNCISS STKAIEQMYC DPLLRQVPYR LHAVLVHEGQ 600
    ASAGHYWAYI YNQPRQTWLK YNDISVTESS WEELERDSYG GLRNVSAYCL 650
    MYINDNLPHF SAEASSNESD ETAGEVEALS VELRQYIQED NWRFQQEVEE 700
    WEEEQSCKIP QMESSPNSSS QDFSTSQESP AVSSHEVRCL SSEHAVIAKE 750
    QTAQAIANTA HAYEKSGVEA ALSEAFHEEY SRLYQLAKET PTSHSDPRLQ 800
    HVLVYFFQNE APKRVVERTL LEQFADRNLS YDERSISIMK VAQAKLMEIG 850
    PDDMNMEEYK RWHEDYSLFR KVSVYLLTGL ELFQKGKYQE ALSYLVYAYQ 900
    SNAGLLVKGP RRGVKESVIA LYRRKCLLEL NAKAASLFET NDDHSVTEGI 950
    NVMNELIIPC IHLIINNDIS KDDLDAIEVM RNHWCSYLGK DIAENLQLCL 1000
    GEFLPRLLDP SAEIIVLKEP PTIRPNSPYD LCNRFAAVME SIQGVSTVTV 1050
    K 1051
    Length:1,051
    Mass (Da):119,318
    Last modified:February 15, 2005 - v1
    Checksum:i72623C4668860749
    GO
    Isoform 2 (identifier: Q5I043-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         429-453: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:1,026
    Mass (Da):116,402
    Checksum:i4620DBD05FE6E55A
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti523 – 5231P → L in BAC98190. (PubMed:14621295)Curated
    Sequence conflicti617 – 6171T → I in BAC98190. (PubMed:14621295)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei429 – 45325Missing in isoform 2. 1 PublicationVSP_015581Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC066033 mRNA. Translation: AAH66033.1.
    BC088733 mRNA. Translation: AAH88733.1.
    AK052442 mRNA. Translation: BAC34993.1.
    AK129380 mRNA. Translation: BAC98190.1.
    CCDSiCCDS40613.1. [Q5I043-1]
    RefSeqiNP_780691.2. NM_175482.3. [Q5I043-1]
    UniGeneiMm.21630.

    Genome annotation databases

    EnsembliENSMUST00000047349; ENSMUSP00000047467; ENSMUSG00000032267. [Q5I043-1]
    GeneIDi235323.
    KEGGimmu:235323.
    UCSCiuc009pir.1. mouse. [Q5I043-1]
    uc009pis.1. mouse. [Q5I043-2]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC066033 mRNA. Translation: AAH66033.1 .
    BC088733 mRNA. Translation: AAH88733.1 .
    AK052442 mRNA. Translation: BAC34993.1 .
    AK129380 mRNA. Translation: BAC98190.1 .
    CCDSi CCDS40613.1. [Q5I043-1 ]
    RefSeqi NP_780691.2. NM_175482.3. [Q5I043-1 ]
    UniGenei Mm.21630.

    3D structure databases

    ProteinModelPortali Q5I043.
    SMRi Q5I043. Positions 22-132, 162-402, 576-656.
    ModBasei Search...
    MobiDBi Search...

    Protein family/group databases

    MEROPSi C19.054.

    PTM databases

    PhosphoSitei Q5I043.

    Proteomic databases

    MaxQBi Q5I043.
    PaxDbi Q5I043.
    PRIDEi Q5I043.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000047349 ; ENSMUSP00000047467 ; ENSMUSG00000032267 . [Q5I043-1 ]
    GeneIDi 235323.
    KEGGi mmu:235323.
    UCSCi uc009pir.1. mouse. [Q5I043-1 ]
    uc009pis.1. mouse. [Q5I043-2 ]

    Organism-specific databases

    CTDi 57646.
    MGIi MGI:2442293. Usp28.
    Rougei Search...

    Phylogenomic databases

    eggNOGi COG5077.
    GeneTreei ENSGT00390000016082.
    HOGENOMi HOG000007956.
    HOVERGENi HBG056030.
    InParanoidi Q5I043.
    KOi K11849.
    OMAi CIASTTQ.
    OrthoDBi EOG761BSZ.
    PhylomeDBi Q5I043.
    TreeFami TF329035.

    Miscellaneous databases

    NextBioi 382599.
    PROi Q5I043.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q5I043.
    Bgeei Q5I043.
    CleanExi MM_USP28.
    Genevestigatori Q5I043.

    Family and domain databases

    InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR009060. UBA-like.
    IPR003903. Ubiquitin-int_motif.
    IPR028889. UCH/PAN2.
    [Graphical view ]
    Pfami PF00443. UCH. 1 hit.
    [Graphical view ]
    SMARTi SM00726. UIM. 1 hit.
    [Graphical view ]
    SUPFAMi SSF46934. SSF46934. 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 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] (ISOFORMS 1 AND 2).
      Strain: C57BL/6J.
      Tissue: Brain and Embryonic germ cell.
    2. "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 292-1051.
      Strain: C57BL/6J.
      Tissue: Lung.
    3. "Prediction of the coding sequences of mouse homologues of KIAA gene: III. The complete nucleotide sequences of 500 mouse KIAA-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., Nagase T., Ohara O., Koga H.
      DNA Res. 10:167-180(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 392-1051.
      Tissue: Embryonic tail.

    Entry informationi

    Entry nameiUBP28_MOUSE
    AccessioniPrimary (citable) accession number: Q5I043
    Secondary accession number(s): Q6NZP3, Q6ZPP1, Q8BWI1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 13, 2005
    Last sequence update: February 15, 2005
    Last modified: October 1, 2014
    This is version 86 of the entry and version 1 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