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Q8NB14

- UBP38_HUMAN

UniProt

Q8NB14 - UBP38_HUMAN

Protein

Ubiquitin carboxyl-terminal hydrolase 38

Gene

USP38

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 100 (01 Oct 2014)
      Sequence version 2 (10 Oct 2003)
      Previous versions | rss
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    Functioni

    Deubiquitinating enzyme exhibiting a preference towards 'Lys-63'-linked Ubiquitin chains.1 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).1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei454 – 4541NucleophilePROSITE-ProRule annotation
    Active sitei857 – 8571Proton acceptorPROSITE-ProRule annotation

    GO - Molecular functioni

    1. ubiquitin-specific protease activity Source: FlyBase

    GO - Biological processi

    1. protein deubiquitination Source: FlyBase
    2. ubiquitin-dependent protein catabolic process Source: InterPro

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Ubl conjugation pathway

    Protein family/group databases

    MEROPSiC19.056.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 38 (EC:3.4.19.12)
    Alternative name(s):
    Deubiquitinating enzyme 38
    HP43.8KD
    Ubiquitin thioesterase 38
    Ubiquitin-specific-processing protease 38
    Gene namesi
    Name:USP38
    Synonyms:KIAA1891
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 4

    Organism-specific databases

    HGNCiHGNC:20067. USP38.

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA134880611.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 10421042Ubiquitin carboxyl-terminal hydrolase 38PRO_0000080668Add
    BLAST

    Proteomic databases

    MaxQBiQ8NB14.
    PaxDbiQ8NB14.
    PRIDEiQ8NB14.

    PTM databases

    PhosphoSiteiQ8NB14.

    Expressioni

    Tissue specificityi

    Highly expressed in skeletal muscle. Expressed in adrenal gland.2 Publications

    Gene expression databases

    ArrayExpressiQ8NB14.
    BgeeiQ8NB14.
    CleanExiHS_USP38.
    GenevestigatoriQ8NB14.

    Organism-specific databases

    HPAiHPA047948.

    Interactioni

    Protein-protein interaction databases

    BioGridi124165. 8 interactions.
    IntActiQ8NB14. 6 interactions.
    STRINGi9606.ENSP00000303434.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8NB14.
    SMRiQ8NB14. Positions 433-633, 717-946.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini445 – 949505USPAdd
    BLAST

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG5560.
    HOGENOMiHOG000007432.
    HOVERGENiHBG060424.
    InParanoidiQ8NB14.
    KOiK11854.
    OMAiHYYSYAR.
    PhylomeDBiQ8NB14.
    TreeFamiTF324529.

    Family and domain databases

    InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028889. UCH/PAN2.
    [Graphical view]
    PfamiPF00443. UCH. 1 hit.
    [Graphical view]
    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: Q8NB14-1) [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

    MDKILEGLVS SSHPLPLKRV IVRKVVESAE HWLDEAQCEA MFDLTTRLIL     50
    EGQDPFQRQV GHQVLEAYAR YHRPEFESFF NKTFVLGLLH QGYHSLDRKD 100
    VAILDYIHNG LKLIMSCPSV LDLFSLLQVE VLRMVCERPE PQLCARLSDL 150
    LTDFVQCIPK GKLSITFCQQ LVRTIGHFQC VSTQERELRE YVSQVTKVSN 200
    LLQNIWKAEP ATLLPSLQEV FASISSTDAS FEPSVALASL VQHIPLQMIT 250
    VLIRSLTTDP NVKDASMTQA LCRMIDWLSW PLAQHVDTWV IALLKGLAAV 300
    QKFTILIDVT LLKIELVFNR LWFPLVRPGA LAVLSHMLLS FQHSPEAFHL 350
    IVPHVVNLVH SFKNDGLPSS TAFLVQLTEL IHCMMYHYSG FPDLYEPILE 400
    AIKDFPKPSE EKIKLILNQS AWTSQSNSLA SCLSRLSGKS ETGKTGLINL 450
    GNTCYMNSVI QALFMATDFR RQVLSLNLNG CNSLMKKLQH LFAFLAHTQR 500
    EAYAPRIFFE ASRPPWFTPR SQQDCSEYLR FLLDRLHEEE KILKVQASHK 550
    PSEILECSET SLQEVASKAA VLTETPRTSD GEKTLIEKMF GGKLRTHIRC 600
    LNCRSTSQKV EAFTDLSLAF CPSSSLENMS VQDPASSPSI QDGGLMQASV 650
    PGPSEEPVVY NPTTAAFICD SLVNEKTIGS PPNEFYCSEN TSVPNESNKI 700
    LVNKDVPQKP GGETTPSVTD LLNYFLAPEI LTGDNQYYCE NCASLQNAEK 750
    TMQITEEPEY LILTLLRFSY DQKYHVRRKI LDNVSLPLVL ELPVKRITSF 800
    SSLSESWSVD VDFTDLSENL AKKLKPSGTD EASCTKLVPY LLSSVVVHSG 850
    ISSESGHYYS YARNITSTDS SYQMYHQSEA LALASSQSHL LGRDSPSAVF 900
    EQDLENKEMS KEWFLFNDSR VTFTSFQSVQ KITSRFPKDT AYVLLYKKQH 950
    STNGLSGNNP TSGLWINGDP PLQKELMDAI TKDNKLYLQE QELNARARAL 1000
    QAASASCSFR PNGFDDNDPP GSCGPTGGGG GGGFNTVGRL VF 1042
    Length:1,042
    Mass (Da):116,546
    Last modified:October 10, 2003 - v2
    Checksum:iD888D4F44C6E7251
    GO
    Isoform 2 (identifier: Q8NB14-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         990-1042: EQELNARARALQAASASCSFRPNGFDDNDPPGSCGPTGGGGGGGFNTVGRLVF → VSWKYKLYLLKILNN

    Note: No experimental confirmation available.

    Show »
    Length:1,004
    Mass (Da):113,157
    Checksum:i89960B24E70287A4
    GO

    Sequence cautioni

    The sequence BAC03730.1 differs from that shown. Reason: The absence of the residues from Tyr-840 to Ser-871 is not the result of an alternative splicing.
    The sequence AAK26248.1 differs from that shown. Reason: Erroneous initiation.
    The sequence BAB71627.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti646 – 6461M → V in BAC03730. (PubMed:14702039)Curated
    Sequence conflicti919 – 9191S → G in BAB71627. (PubMed:14702039)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei990 – 104253EQELN…GRLVF → VSWKYKLYLLKILNN in isoform 2. 1 PublicationVSP_054486Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK057992 mRNA. Translation: BAB71627.1. Different initiation.
    AK091712 mRNA. Translation: BAC03730.1. Sequence problems.
    AK126943 mRNA. Translation: BAG54405.1.
    AL833976 mRNA. Translation: CAD38820.1.
    AC099549 Genomic DNA. No translation available.
    AC116175 Genomic DNA. No translation available.
    CH471056 Genomic DNA. Translation: EAX05075.1.
    CH471056 Genomic DNA. Translation: EAX05076.1.
    BC039115 mRNA. Translation: AAH39115.1.
    BC068975 mRNA. Translation: AAH68975.1.
    AB067478 mRNA. Translation: BAB67784.1.
    AF211481 mRNA. Translation: AAK26248.1. Different initiation.
    CCDSiCCDS3758.1. [Q8NB14-1]
    RefSeqiNP_001277254.1. NM_001290325.1. [Q8NB14-2]
    NP_001277255.1. NM_001290326.1.
    NP_115946.2. NM_032557.6. [Q8NB14-1]
    UniGeneiHs.480848.

    Genome annotation databases

    EnsembliENST00000307017; ENSP00000303434; ENSG00000170185. [Q8NB14-1]
    ENST00000510377; ENSP00000427647; ENSG00000170185. [Q8NB14-2]
    GeneIDi84640.
    KEGGihsa:84640.
    UCSCiuc003ija.4. human.
    uc003ijb.3. human. [Q8NB14-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK057992 mRNA. Translation: BAB71627.1 . Different initiation.
    AK091712 mRNA. Translation: BAC03730.1 . Sequence problems.
    AK126943 mRNA. Translation: BAG54405.1 .
    AL833976 mRNA. Translation: CAD38820.1 .
    AC099549 Genomic DNA. No translation available.
    AC116175 Genomic DNA. No translation available.
    CH471056 Genomic DNA. Translation: EAX05075.1 .
    CH471056 Genomic DNA. Translation: EAX05076.1 .
    BC039115 mRNA. Translation: AAH39115.1 .
    BC068975 mRNA. Translation: AAH68975.1 .
    AB067478 mRNA. Translation: BAB67784.1 .
    AF211481 mRNA. Translation: AAK26248.1 . Different initiation.
    CCDSi CCDS3758.1. [Q8NB14-1 ]
    RefSeqi NP_001277254.1. NM_001290325.1. [Q8NB14-2 ]
    NP_001277255.1. NM_001290326.1.
    NP_115946.2. NM_032557.6. [Q8NB14-1 ]
    UniGenei Hs.480848.

    3D structure databases

    ProteinModelPortali Q8NB14.
    SMRi Q8NB14. Positions 433-633, 717-946.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 124165. 8 interactions.
    IntActi Q8NB14. 6 interactions.
    STRINGi 9606.ENSP00000303434.

    Protein family/group databases

    MEROPSi C19.056.

    PTM databases

    PhosphoSitei Q8NB14.

    Proteomic databases

    MaxQBi Q8NB14.
    PaxDbi Q8NB14.
    PRIDEi Q8NB14.

    Protocols and materials databases

    DNASUi 84640.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000307017 ; ENSP00000303434 ; ENSG00000170185 . [Q8NB14-1 ]
    ENST00000510377 ; ENSP00000427647 ; ENSG00000170185 . [Q8NB14-2 ]
    GeneIDi 84640.
    KEGGi hsa:84640.
    UCSCi uc003ija.4. human.
    uc003ijb.3. human. [Q8NB14-1 ]

    Organism-specific databases

    CTDi 84640.
    GeneCardsi GC04P144106.
    HGNCi HGNC:20067. USP38.
    HPAi HPA047948.
    neXtProti NX_Q8NB14.
    PharmGKBi PA134880611.
    HUGEi Search...
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG5560.
    HOGENOMi HOG000007432.
    HOVERGENi HBG060424.
    InParanoidi Q8NB14.
    KOi K11854.
    OMAi HYYSYAR.
    PhylomeDBi Q8NB14.
    TreeFami TF324529.

    Miscellaneous databases

    ChiTaRSi USP38. human.
    GenomeRNAii 84640.
    NextBioi 74575.
    PROi Q8NB14.

    Gene expression databases

    ArrayExpressi Q8NB14.
    Bgeei Q8NB14.
    CleanExi HS_USP38.
    Genevestigatori Q8NB14.

    Family and domain databases

    InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028889. UCH/PAN2.
    [Graphical view ]
    Pfami PF00443. UCH. 1 hit.
    [Graphical view ]
    PROSITEi PS00972. USP_1. 1 hit.
    PS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
      Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
      , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
      Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Brain, Chondrocyte and Gastric mucosa.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Testis.
    3. "Generation and annotation of the DNA sequences of human chromosomes 2 and 4."
      Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H.
      , Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., Wilson R.K.
      Nature 434:724-731(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    5. "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).
      Tissue: Brain and Testis.
    6. "Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins."
      Nagase T., Kikuno R., Ohara O.
      DNA Res. 8:179-187(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 263-1042 (ISOFORM 1), TISSUE SPECIFICITY.
      Tissue: Brain.
    7. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 633-1042 (ISOFORM 1).
      Tissue: Adrenal gland.
    8. "Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases."
      Quesada V., Diaz-Perales A., Gutierrez-Fernandez A., Garabaya C., Cal S., Lopez-Otin C.
      Biochem. Biophys. Res. Commun. 314:54-62(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: TISSUE SPECIFICITY, ENZYME ACTIVITY.
    9. "Profiling ubiquitin linkage specificities of deubiquitinating enzymes with branched ubiquitin isopeptide probes."
      Iphofer A., Kummer A., Nimtz M., Ritter A., Arnold T., Frank R., van den Heuvel J., Kessler B.M., Jansch L., Franke R.
      ChemBioChem 13:1416-1420(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, LINKAGE SPECIFICITY.

    Entry informationi

    Entry nameiUBP38_HUMAN
    AccessioniPrimary (citable) accession number: Q8NB14
    Secondary accession number(s): B3KX93
    , Q3ZCV1, Q8NDF5, Q96DK6, Q96PZ6, Q9BY55
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 10, 2003
    Last sequence update: October 10, 2003
    Last modified: October 1, 2014
    This is version 100 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 4
      Human chromosome 4: entries, gene names and cross-references to MIM
    2. Peptidase families
      Classification of peptidase families and list of entries
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3