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B2RYG6

- OTUB1_RAT

UniProt

B2RYG6 - OTUB1_RAT

Protein

Ubiquitin thioesterase OTUB1

Gene

Otub1

Organism
Rattus norvegicus (Rat)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 53 (01 Oct 2014)
      Sequence version 1 (01 Jul 2008)
      Previous versions | rss
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    Functioni

    Hydrolase that can specifically remove compared to 'Lys-48'-linked conjugated ubiquitin from proteins and plays an important regulatory role at the level of protein turnover by preventing degradation. Regulator of T-cell anergy, a phenomenon that occurs when T-cells are rendered unresponsive to antigen rechallenge and no longer respond to their cognate antigen. Acts via its interaction with RNF128/GRAIL. Surprisingly, it regulates RNF128-mediated ubiquitination, but does not deubiquitinate polyubiquitinated RNF128. Deubiquitinates estrogen receptor alpha (ESR1). Mediates deubiquitination of 'Lys-48'-linked polyubiquitin chains, but not 'Lys-63'-linked polyubiquitin chains. Not able to cleave di-ubiquitin. Also capable of removing NEDD8 from NEDD8 conjugates, but with a much lower preference compared to 'Lys-48'-linked ubiquitin By similarity.By similarity
    Plays a key non-catalytic role in DNA repair regulation by inhibiting activity of RNF168, an E3 ubiquitin-protein ligase that promotes accumulation of 'Lys-63'-linked histone H2A and H2AX at DNA damage sites. Inhibits RNF168 independently of ubiquitin thioesterase activity by binding and inhibiting UBE2N/UBC13, the E2 partner of RNF168, thereby limiting spreading of 'Lys-63'-linked histone H2A and H2AX marks. Inhibition occurs by binding to free ubiquitin: free ubiquitin acts as an allosteric regulator that increases affinity for UBE2N/UBC13 and disrupts interaction with UBE2V1. The OTUB1-UBE2N/UBC13-free ubiquitin complex adopts a configuration that mimics a cleaved 'Lys48'-linked di-ubiquitin chain 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).

    Enzyme regulationi

    By free ubiquitin: binding of free ubiquitin triggers conformational changes in the OTU domain and formation of a ubiquitin-binding helix in the N-terminus, promoting binding of the conjugated donor ubiquitin in UBE2N/UBC13 to OTUB1.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei23 – 231Required for proximal ubiquitin-bindingBy similarity
    Active sitei88 – 881By similarity
    Active sitei91 – 911NucleophileBy similarity
    Binding sitei221 – 2211Free ubiquitinBy similarity
    Binding sitei235 – 2351Free ubiquitinBy similarity
    Binding sitei237 – 2371Free ubiquitinBy similarity
    Binding sitei261 – 2611Free ubiquitinBy similarity
    Active sitei265 – 2651By similarity
    Binding sitei266 – 2661Free ubiquitinBy similarity

    GO - Molecular functioni

    1. NEDD8-specific protease activity Source: UniProtKB
    2. omega peptidase activity Source: InterPro
    3. ubiquitin binding Source: UniProtKB
    4. ubiquitin-specific protease activity Source: UniProtKB

    GO - Biological processi

    1. cellular response to DNA damage stimulus Source: UniProtKB
    2. DNA repair Source: UniProtKB-KW
    3. immune system process Source: UniProtKB-KW
    4. negative regulation of double-strand break repair Source: UniProtKB
    5. negative regulation of histone H2A K63-linked ubiquitination Source: UniProtKB
    6. protein K48-linked deubiquitination Source: UniProtKB

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Adaptive immunity, DNA damage, DNA repair, Immunity, Ubl conjugation pathway

    Protein family/group databases

    MEROPSiC65.001.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin thioesterase OTUB1By similarity (EC:3.4.19.12)
    Alternative name(s):
    Deubiquitinating enzyme OTUB1By similarity
    OTU domain-containing ubiquitin aldehyde-binding protein 1By similarity
    Otubain-1By similarity
    Ubiquitin-specific-processing protease OTUB1By similarity
    Gene namesi
    Name:Otub1Imported
    OrganismiRattus norvegicus (Rat)
    Taxonomic identifieri10116 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
    ProteomesiUP000002494: Chromosome 1

    Organism-specific databases

    RGDi1311329. Otub1.

    Subcellular locationi

    Cytoplasm 1 Publication

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11RemovedBy similarity
    Chaini2 – 271270Ubiquitin thioesterase OTUB1PRO_0000349125Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylalanineBy similarity
    Modified residuei16 – 161PhosphoserineBy similarity

    Keywords - PTMi

    Acetylation, Phosphoprotein

    Proteomic databases

    PaxDbiB2RYG6.
    PRIDEiB2RYG6.

    2D gel databases

    World-2DPAGE0004:B2RYG6.

    PTM databases

    PhosphoSiteiB2RYG6.

    Expressioni

    Gene expression databases

    GenevestigatoriB2RYG6.

    Interactioni

    Subunit structurei

    Interacts with RNF128. Forms a ternary complex with RNF128 and USP8. Interacts with FUS, ESR1 and GNB2L1/RACK1. Interacts with UBE2N/UBC13 By similarity.By similarity

    Protein-protein interaction databases

    BioGridi254414. 2 interactions.
    STRINGi10116.ENSRNOP00000028752.

    Structurei

    3D structure databases

    ProteinModelPortaliB2RYG6.
    SMRiB2RYG6. Positions 25-271.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini80 – 271192OTUPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni130 – 1389Ubiquitin-conjugating enzyme E2 bindingBy similarity
    Regioni169 – 1779Ubiquitin-conjugating enzyme E2 bindingBy similarity
    Regioni189 – 1957Free ubiquitin bindingBy similarity
    Regioni206 – 2138Ubiquitin-conjugating enzyme E2 bindingBy similarity
    Regioni214 – 2218Free ubiquitin bindingBy similarity
    Regioni245 – 2517Free ubiquitin bindingBy similarity

    Sequence similaritiesi

    Belongs to the peptidase C65 family.Sequence Analysis
    Contains 1 OTU domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiNOG267426.
    GeneTreeiENSGT00390000006979.
    HOGENOMiHOG000019496.
    HOVERGENiHBG053383.
    KOiK09602.
    OMAiVEPMYKE.
    OrthoDBiEOG71K64D.
    PhylomeDBiB2RYG6.
    TreeFamiTF314145.

    Family and domain databases

    InterProiIPR003323. OTU.
    IPR019400. Peptidase_C65_otubain.
    IPR016615. Ubiquitin_thioesterase_Otubain.
    [Graphical view]
    PfamiPF10275. Peptidase_C65. 1 hit.
    [Graphical view]
    PIRSFiPIRSF013503. Ubiquitin_thioesterase_Otubain. 1 hit.
    PROSITEiPS50802. OTU. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    B2RYG6-1 [UniParc]FASTAAdd to Basket

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    MAAEEPQQQK QEPLGSDSEG VNCLAYDEAI MAQQDRIQQE IAVQNPLVSE    50
    RLELSVLYKE YAEDDNIYQQ KIKDLHKKYS YIRKTRPDGN CFYRAFGFSH 100
    LEALLDDSKE LQRFKAVSAK SKEDLVSQGF TEFTIEDFHN TFMDLIEQVE 150
    KQTSVADLLA SFNDQSTSDY LVVYLRLLTS GYLQRESKFF EHFIEGGRTV 200
    KEFCQQEVEP MCKESDHIHI IALAQALSVS IQVEYMDRGE GGTTNPHVFP 250
    EGSEPKVYLL YRPGHYDILY K 271
    Length:271
    Mass (Da):31,270
    Last modified:July 1, 2008 - v1
    Checksum:i32F78EE1DC5FD679
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CH473953 Genomic DNA. Translation: EDM12666.1.
    BC166771 mRNA. Translation: AAI66771.1.
    RefSeqiNP_001099802.1. NM_001106332.1.
    UniGeneiRn.9218.

    Genome annotation databases

    EnsembliENSRNOT00000028752; ENSRNOP00000028752; ENSRNOG00000021175.
    GeneIDi293705.
    KEGGirno:293705.
    UCSCiRGD:1311329. rat.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CH473953 Genomic DNA. Translation: EDM12666.1 .
    BC166771 mRNA. Translation: AAI66771.1 .
    RefSeqi NP_001099802.1. NM_001106332.1.
    UniGenei Rn.9218.

    3D structure databases

    ProteinModelPortali B2RYG6.
    SMRi B2RYG6. Positions 25-271.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 254414. 2 interactions.
    STRINGi 10116.ENSRNOP00000028752.

    Protein family/group databases

    MEROPSi C65.001.

    PTM databases

    PhosphoSitei B2RYG6.

    2D gel databases

    World-2DPAGE 0004:B2RYG6.

    Proteomic databases

    PaxDbi B2RYG6.
    PRIDEi B2RYG6.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSRNOT00000028752 ; ENSRNOP00000028752 ; ENSRNOG00000021175 .
    GeneIDi 293705.
    KEGGi rno:293705.
    UCSCi RGD:1311329. rat.

    Organism-specific databases

    CTDi 55611.
    RGDi 1311329. Otub1.

    Phylogenomic databases

    eggNOGi NOG267426.
    GeneTreei ENSGT00390000006979.
    HOGENOMi HOG000019496.
    HOVERGENi HBG053383.
    KOi K09602.
    OMAi VEPMYKE.
    OrthoDBi EOG71K64D.
    PhylomeDBi B2RYG6.
    TreeFami TF314145.

    Miscellaneous databases

    NextBioi 636821.
    PROi B2RYG6.

    Gene expression databases

    Genevestigatori B2RYG6.

    Family and domain databases

    InterProi IPR003323. OTU.
    IPR019400. Peptidase_C65_otubain.
    IPR016615. Ubiquitin_thioesterase_Otubain.
    [Graphical view ]
    Pfami PF10275. Peptidase_C65. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF013503. Ubiquitin_thioesterase_Otubain. 1 hit.
    PROSITEi PS50802. OTU. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
      Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Brown Norway.
    2. "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].
      Tissue: ProstateImported.
    3. "Proteome profile of the mature rat olfactory bulb."
      Maurya D.K., Sundaram C.S., Bhargava P.
      Proteomics 9:2593-2599(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY, SUBCELLULAR LOCATION.

    Entry informationi

    Entry nameiOTUB1_RAT
    AccessioniPrimary (citable) accession number: B2RYG6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 2, 2008
    Last sequence update: July 1, 2008
    Last modified: October 1, 2014
    This is version 53 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. Peptidase families
      Classification of peptidase families and list of entries
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3