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Q5T2D3

- OTUD3_HUMAN

UniProt

Q5T2D3 - OTUD3_HUMAN

Protein

OTU domain-containing protein 3

Gene

OTUD3

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 75 (01 Oct 2014)
      Sequence version 1 (21 Dec 2004)
      Previous versions | rss
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    Functioni

    Deubiquitinating enzyme that hydrolyzes 'Lys-6'- and 'Lys-11'-linked polyubiquitin. Also hydrolyzes heterotypic (mixed and branched) and homotypic 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 sitei73 – 731By similarity
    Active sitei76 – 761NucleophileBy similarity
    Active sitei182 – 1821By similarity

    GO - Molecular functioni

    1. ubiquitin-specific protease activity Source: UniProtKB

    GO - Biological processi

    1. protein K11-linked deubiquitination Source: UniProtKB
    2. protein K6-linked deubiquitination Source: UniProtKB

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Ubl conjugation pathway

    Protein family/group databases

    MEROPSiC85.003.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    OTU domain-containing protein 3 (EC:3.4.19.12)
    Gene namesi
    Name:OTUD3
    Synonyms:KIAA0459
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 1

    Organism-specific databases

    HGNCiHGNC:29038. OTUD3.

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi178 – 1814RYGE → LSNG: Impaired activity. 1 Publication

    Organism-specific databases

    PharmGKBiPA142671215.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 398398OTU domain-containing protein 3PRO_0000058103Add
    BLAST

    Proteomic databases

    MaxQBiQ5T2D3.
    PaxDbiQ5T2D3.
    PRIDEiQ5T2D3.

    PTM databases

    PhosphoSiteiQ5T2D3.

    Expressioni

    Gene expression databases

    ArrayExpressiQ5T2D3.
    BgeeiQ5T2D3.
    CleanExiHS_OTUD3.
    GenevestigatoriQ5T2D3.

    Organism-specific databases

    HPAiHPA028543.
    HPA028544.

    Interactioni

    Protein-protein interaction databases

    BioGridi116856. 2 interactions.
    STRINGi9606.ENSP00000364261.

    Structurei

    Secondary structure

    1
    398
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi56 – 627
    Beta strandi65 – 684
    Helixi76 – 8611
    Beta strandi87 – 893
    Helixi92 – 10514
    Helixi107 – 1104
    Helixi111 – 1133
    Helixi120 – 1289
    Helixi136 – 14510
    Beta strandi149 – 1535
    Beta strandi160 – 1667
    Beta strandi172 – 1787
    Turni179 – 1813
    Beta strandi182 – 1887

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4BOUX-ray1.55A52-209[»]
    ProteinModelPortaliQ5T2D3.
    SMRiQ5T2D3. Positions 52-190.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini65 – 189125OTUPROSITE-ProRule annotationAdd
    BLAST
    Domaini230 – 27041UBA-likeAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni70 – 767Cys-loop
    Regioni127 – 13711Variable-loopAdd
    BLAST
    Regioni177 – 1826His-loop

    Domaini

    The UBA-like domain has no influence on ubiquitin hydrolysis.1 Publication
    Specificity is given by the S1' ubiquitin-binding site within the OTU domain composed of the Cys-, His- and Variable-loops.1 Publication

    Sequence similaritiesi

    Contains 1 OTU domain.PROSITE-ProRule annotation
    Contains 1 UBA-like domain.Curated

    Phylogenomic databases

    eggNOGiNOG136081.
    HOGENOMiHOG000049263.
    HOVERGENiHBG056738.
    InParanoidiQ5T2D3.
    KOiK13717.
    OMAiANKNQLP.
    OrthoDBiEOG70ZZNW.
    PhylomeDBiQ5T2D3.
    TreeFamiTF329594.

    Family and domain databases

    InterProiIPR003323. OTU.
    [Graphical view]
    PfamiPF02338. OTU. 1 hit.
    [Graphical view]
    PROSITEiPS50802. OTU. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q5T2D3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSRKQAAKSR PGSGSRKAEA ERKRDERAAR RALAKERRNR PESGGGGGCE    50
    EEFVSFANQL QALGLKLREV PGDGNCLFRA LGDQLEGHSR NHLKHRQETV 100
    DYMIKQREDF EPFVEDDIPF EKHVASLAKP GTFAGNDAIV AFARNHQLNV 150
    VIHQLNAPLW QIRGTEKSSV RELHIAYRYG EHYDSVRRIN DNSEAPAHLQ 200
    TDFQMLHQDE SNKREKIKTK GMDSEDDLRD EVEDAVQKVC NATGCSDFNL 250
    IVQNLEAENY NIESAIIAVL RMNQGKRNNA EENLEPSGRV LKQCGPLWEE 300
    GGSGARIFGN QGLNEGRTEN NKAQASPSEE NKANKNQLAK VTNKQRREQQ 350
    WMEKKKRQEE RHRHKALESR GSHRDNNRSE AEANTQVTLV KTFAALNI 398
    Length:398
    Mass (Da):45,124
    Last modified:December 21, 2004 - v1
    Checksum:i9C16E610CF1E3C5A
    GO

    Sequence cautioni

    The sequence BAA32304.2 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti321 – 3211N → S.
    Corresponds to variant rs2298110 [ dbSNP | Ensembl ].
    VAR_051258
    Natural varianti333 – 3331A → T.
    Corresponds to variant rs10916668 [ dbSNP | Ensembl ].
    VAR_051259

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB007928 mRNA. Translation: BAA32304.2. Different initiation.
    AL391883 Genomic DNA. Translation: CAI17041.1.
    CCDSiCCDS41279.1.
    RefSeqiNP_056022.1. NM_015207.1.
    UniGeneiHs.374987.

    Genome annotation databases

    EnsembliENST00000375120; ENSP00000364261; ENSG00000169914.
    GeneIDi23252.
    KEGGihsa:23252.
    UCSCiuc001bcs.4. human.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB007928 mRNA. Translation: BAA32304.2 . Different initiation.
    AL391883 Genomic DNA. Translation: CAI17041.1 .
    CCDSi CCDS41279.1.
    RefSeqi NP_056022.1. NM_015207.1.
    UniGenei Hs.374987.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4BOU X-ray 1.55 A 52-209 [» ]
    ProteinModelPortali Q5T2D3.
    SMRi Q5T2D3. Positions 52-190.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 116856. 2 interactions.
    STRINGi 9606.ENSP00000364261.

    Protein family/group databases

    MEROPSi C85.003.

    PTM databases

    PhosphoSitei Q5T2D3.

    Proteomic databases

    MaxQBi Q5T2D3.
    PaxDbi Q5T2D3.
    PRIDEi Q5T2D3.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000375120 ; ENSP00000364261 ; ENSG00000169914 .
    GeneIDi 23252.
    KEGGi hsa:23252.
    UCSCi uc001bcs.4. human.

    Organism-specific databases

    CTDi 23252.
    GeneCardsi GC01P020208.
    HGNCi HGNC:29038. OTUD3.
    HPAi HPA028543.
    HPA028544.
    MIMi 611758. gene.
    neXtProti NX_Q5T2D3.
    PharmGKBi PA142671215.
    HUGEi Search...
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG136081.
    HOGENOMi HOG000049263.
    HOVERGENi HBG056738.
    InParanoidi Q5T2D3.
    KOi K13717.
    OMAi ANKNQLP.
    OrthoDBi EOG70ZZNW.
    PhylomeDBi Q5T2D3.
    TreeFami TF329594.

    Miscellaneous databases

    GenomeRNAii 23252.
    NextBioi 44955.
    PROi Q5T2D3.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q5T2D3.
    Bgeei Q5T2D3.
    CleanExi HS_OTUD3.
    Genevestigatori Q5T2D3.

    Family and domain databases

    InterProi IPR003323. OTU.
    [Graphical view ]
    Pfami PF02338. OTU. 1 hit.
    [Graphical view ]
    PROSITEi PS50802. OTU. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Characterization of cDNA clones in size-fractionated cDNA libraries from human brain."
      Seki N., Ohira M., Nagase T., Ishikawa K., Miyajima N., Nakajima D., Nomura N., Ohara O.
      DNA Res. 4:345-349(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Brain.
    2. "The DNA sequence and biological annotation of human chromosome 1."
      Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
      , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
      Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    3. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Cervix carcinoma.
    4. "OTU deubiquitinases reveal mechanisms of linkage specificity and enable ubiquitin chain restriction analysis."
      Mevissen T.E., Hospenthal M.K., Geurink P.P., Elliott P.R., Akutsu M., Arnaudo N., Ekkebus R., Kulathu Y., Wauer T., El Oualid F., Freund S.M., Ovaa H., Komander D.
      Cell 154:169-184(2013) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.55 ANGSTROMS) OF 52-209, FUNCTION, CATALYTIC ACTIVITY, MUTAGENESIS OF 178-ARG--GLU-181.

    Entry informationi

    Entry nameiOTUD3_HUMAN
    AccessioniPrimary (citable) accession number: Q5T2D3
    Secondary accession number(s): O75047
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 30, 2005
    Last sequence update: December 21, 2004
    Last modified: October 1, 2014
    This is version 75 of the entry and version 1 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

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Human chromosome 1
      Human chromosome 1: entries, gene names and cross-references to MIM
    2. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    3. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    4. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    6. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3