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Q567B1

- OTU1_DANRE

UniProt

Q567B1 - OTU1_DANRE

Protein

Ubiquitin thioesterase OTU1

Gene

yod1

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 62 (01 Oct 2014)
      Sequence version 1 (10 May 2005)
      Previous versions | rss
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    Functioni

    Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel. Mediates deubiquitination of 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitin chains. Also able to hydrolyze 'Lys-11'-linked ubiquitin chains. Cleaves both polyubiquitin and di-ubiquitin 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 sitei110 – 1101By similarity
    Active sitei113 – 1131NucleophileBy similarity
    Binding sitei219 – 2191Substrate; via carbonyl oxygenBy similarity
    Active sitei220 – 2201By similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri271 – 29525C2H2-typeAdd
    BLAST

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW
    2. ubiquitin-specific protease activity Source: UniProtKB

    GO - Biological processi

    1. cellular amino acid metabolic process Source: UniProtKB
    2. endoplasmic reticulum unfolded protein response Source: UniProtKB
    3. ER-associated ubiquitin-dependent protein catabolic process Source: UniProtKB
    4. protein K11-linked deubiquitination Source: UniProtKB
    5. protein K27-linked deubiquitination Source: UniProtKB
    6. protein K29-linked deubiquitination Source: UniProtKB
    7. protein K33-linked deubiquitination Source: UniProtKB
    8. protein K48-linked deubiquitination Source: UniProtKB
    9. protein K63-linked deubiquitination Source: UniProtKB

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Ubl conjugation pathway, Unfolded protein response

    Keywords - Ligandi

    Metal-binding, Zinc

    Protein family/group databases

    MEROPSiC85.007.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin thioesterase OTU1 (EC:3.4.19.12)
    Gene namesi
    Name:yod1
    ORF Names:zgc:112182
    OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
    Taxonomic identifieri7955 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
    ProteomesiUP000000437: Chromosome 11

    Organism-specific databases

    ZFINiZDB-GENE-050417-217. yod1.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 301301Ubiquitin thioesterase OTU1PRO_0000282360Add
    BLAST

    Proteomic databases

    PRIDEiQ567B1.

    Expressioni

    Gene expression databases

    BgeeiQ567B1.

    Interactioni

    Protein-protein interaction databases

    STRINGi7955.ENSDARP00000003565.

    Structurei

    3D structure databases

    ProteinModelPortaliQ567B1.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini102 – 227126OTUPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni5 – 8379UBX-likeAdd
    BLAST
    Regioni107 – 1137Cys-loopBy similarity
    Regioni166 – 17611Variable-loopBy similarityAdd
    BLAST
    Regioni216 – 2205His-loopBy similarity
    Regioni244 – 2496S2 siteBy similarity

    Domaini

    The C2H2-type zinc finger mediates specificity for 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitin chains but not for 'Lys-11'-linked ubiquitin chains. Selectivity for 'Lys-11'-linked ubiquitin chains is provided by recognition of the sequence surrounding 'Lys-11' in ubiquitin. The S2 site region provides specificity for longer 'Lys-11'-linked ubiquitin chains By similarity.By similarity

    Sequence similaritiesi

    Contains 1 C2H2-type zinc finger.Curated
    Contains 1 OTU domain.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri271 – 29525C2H2-typeAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiCOG5539.
    GeneTreeiENSGT00390000009989.
    HOGENOMiHOG000193461.
    HOVERGENiHBG097006.
    InParanoidiQ567B1.
    KOiK13719.
    OMAiWIRREET.
    OrthoDBiEOG7J1808.
    PhylomeDBiQ567B1.
    TreeFamiTF323700.

    Family and domain databases

    InterProiIPR003323. OTU.
    IPR000626. Ubiquitin-like.
    IPR029071. Ubiquitin-rel_dom.
    [Graphical view]
    PfamiPF02338. OTU. 1 hit.
    PF14560. Ubiquitin_2. 1 hit.
    [Graphical view]
    SMARTiSM00213. UBQ. 1 hit.
    [Graphical view]
    SUPFAMiSSF54236. SSF54236. 1 hit.
    PROSITEiPS50802. OTU. 1 hit.
    PS50053. UBIQUITIN_2. 1 hit.
    PS00028. ZINC_FINGER_C2H2_1. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q567B1-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLRLRCKAKN GTHLMQGLTH QSCVQELKDK IEELTGIPCD VQKIMVGYPP    50
    SSLDLRNGEA HLKDYPIKSG DTLIVEEEKN KPKPPVQPTV TKGPSFEVTP 100
    VVERRVVPAD NSCLFTSVNY VMEGGVYDPA CASEMRGLIA QIVASDPTAY 150
    SEAVLGKTNE EYCTWIRRDD TWGGAIEVSI LSKFYQCEIC VVDTQTVRVD 200
    RFGEDAGYTK RVLLIYDGIH YDPLQKVLPG SDVPAQTVFS TVDDVILAQA 250
    LELADEARRK RQFTDVNRFA LRCMVCQTGL VGQKEAREHA KETGHTNFGE 300
    V 301
    Length:301
    Mass (Da):33,486
    Last modified:May 10, 2005 - v1
    Checksum:i70D85A2694B56198
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC093247 mRNA. Translation: AAH93247.1.
    RefSeqiNP_001017716.1. NM_001017716.2.
    UniGeneiDr.104832.

    Genome annotation databases

    EnsembliENSDART00000023388; ENSDARP00000003565; ENSDARG00000008542.
    GeneIDi550411.
    KEGGidre:550411.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC093247 mRNA. Translation: AAH93247.1 .
    RefSeqi NP_001017716.1. NM_001017716.2.
    UniGenei Dr.104832.

    3D structure databases

    ProteinModelPortali Q567B1.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 7955.ENSDARP00000003565.

    Protein family/group databases

    MEROPSi C85.007.

    Proteomic databases

    PRIDEi Q567B1.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSDART00000023388 ; ENSDARP00000003565 ; ENSDARG00000008542 .
    GeneIDi 550411.
    KEGGi dre:550411.

    Organism-specific databases

    CTDi 55432.
    ZFINi ZDB-GENE-050417-217. yod1.

    Phylogenomic databases

    eggNOGi COG5539.
    GeneTreei ENSGT00390000009989.
    HOGENOMi HOG000193461.
    HOVERGENi HBG097006.
    InParanoidi Q567B1.
    KOi K13719.
    OMAi WIRREET.
    OrthoDBi EOG7J1808.
    PhylomeDBi Q567B1.
    TreeFami TF323700.

    Miscellaneous databases

    NextBioi 20879660.
    PROi Q567B1.

    Gene expression databases

    Bgeei Q567B1.

    Family and domain databases

    InterProi IPR003323. OTU.
    IPR000626. Ubiquitin-like.
    IPR029071. Ubiquitin-rel_dom.
    [Graphical view ]
    Pfami PF02338. OTU. 1 hit.
    PF14560. Ubiquitin_2. 1 hit.
    [Graphical view ]
    SMARTi SM00213. UBQ. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54236. SSF54236. 1 hit.
    PROSITEi PS50802. OTU. 1 hit.
    PS50053. UBIQUITIN_2. 1 hit.
    PS00028. ZINC_FINGER_C2H2_1. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. NIH - Zebrafish Gene Collection (ZGC) project
      Submitted (APR-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Embryo.

    Entry informationi

    Entry nameiOTU1_DANRE
    AccessioniPrimary (citable) accession number: Q567B1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 3, 2007
    Last sequence update: May 10, 2005
    Last modified: October 1, 2014
    This is version 62 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3