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Q0VA64

- UBP16_XENTR

UniProt

Q0VA64 - UBP16_XENTR

Protein

Ubiquitin carboxyl-terminal hydrolase 16

Gene

usp16

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 57 (01 Oct 2014)
      Sequence version 2 (11 Dec 2013)
      Previous versions | rss
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    Functioni

    Specifically deubiquitinates 'Lys-120' of histone H2A (H2AK119Ub), a specific tag for epigenetic transcriptional repression, thereby acting as a coactivator. Deubiquitination of histone H2A is a prerequisite for subsequent phosphorylation at 'Ser-11' of histone H3 (H3S10ph), and is required for chromosome segregation when cells enter into mitosis. Regulates Hox gene expression via histone H2A deubiquitination. Prefers nucleosomal substrates. Does not deubiquitinate histone H2B.UniRule annotation

    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).UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi21 – 211Zinc 1UniRule annotation
    Metal bindingi23 – 231Zinc 1UniRule annotation
    Metal bindingi45 – 451Zinc 2UniRule annotation
    Metal bindingi48 – 481Zinc 2UniRule annotation
    Metal bindingi71 – 711Zinc 3UniRule annotation
    Metal bindingi74 – 741Zinc 3UniRule annotation
    Metal bindingi79 – 791Zinc 2UniRule annotation
    Metal bindingi87 – 871Zinc 2UniRule annotation
    Metal bindingi91 – 911Zinc 3UniRule annotation
    Metal bindingi100 – 1001Zinc 3UniRule annotation
    Metal bindingi113 – 1131Zinc 1UniRule annotation
    Metal bindingi116 – 1161Zinc 1UniRule annotation
    Active sitei205 – 2051NucleophileUniRule annotation
    Active sitei798 – 7981Proton acceptorUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri43 – 12280UBP-typeUniRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. cysteine-type endopeptidase activity Source: UniProtKB
    2. histone binding Source: UniProtKB
    3. transcription coactivator activity Source: UniProtKB
    4. ubiquitin binding Source: UniProtKB
    5. ubiquitin-specific protease activity Source: UniProtKB
    6. ubiquitin thiolesterase activity Source: UniProtKB
    7. zinc ion binding Source: UniProtKB

    GO - Biological processi

    1. histone deubiquitination Source: UniProtKB
    2. mitotic nuclear division Source: UniProtKB
    3. positive regulation of transcription, DNA-templated Source: UniProtKB
    4. protein homotetramerization Source: UniProtKB
    5. transcription, DNA-templated Source: UniProtKB-KW
    6. ubiquitin-dependent protein catabolic process Source: InterPro

    Keywords - Molecular functioni

    Activator, Chromatin regulator, Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Cell cycle, Cell division, Mitosis, Transcription, Transcription regulation, Ubl conjugation pathway

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 16UniRule annotation (EC:3.4.19.12UniRule annotation)
    Alternative name(s):
    Deubiquitinating enzyme 16UniRule annotation
    Ubiquitin thioesterase 16UniRule annotation
    Ubiquitin-specific-processing protease 16UniRule annotation
    Gene namesi
    Name:usp16
    OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
    Taxonomic identifieri8364 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
    ProteomesiUP000008143: Unplaced

    Organism-specific databases

    XenbaseiXB-GENE-1007164. usp16.

    Subcellular locationi

    Nucleus UniRule annotation

    GO - Cellular componenti

    1. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 864864Ubiquitin carboxyl-terminal hydrolase 16PRO_0000367507Add
    BLAST

    Interactioni

    Subunit structurei

    Homotetramer.UniRule annotation

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini196 – 863668USPAdd
    BLAST

    Domaini

    The UBP-type zinc finger binds 3 zinc ions that form a pair of cross-braced ring fingers encapsulated within a third zinc finger in the primary structure. It recognizes the C-terminal tail of free ubiquitin.UniRule annotation

    Sequence similaritiesi

    Belongs to the peptidase C19 family. USP16 subfamily.UniRule annotation
    Contains 1 UBP-type zinc finger.UniRule annotation
    Contains 1 USP domain.Curated

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri43 – 12280UBP-typeUniRule annotationAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiCOG5560.
    GeneTreeiENSGT00750000117419.
    HOGENOMiHOG000154755.
    HOVERGENiHBG062704.
    KOiK11844.
    OMAiQCEDGEC.
    TreeFamiTF326075.

    Family and domain databases

    Gene3Di3.30.40.10. 1 hit.
    HAMAPiMF_03062. UBP16.
    InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028889. UCH/PAN2.
    IPR013083. Znf_RING/FYVE/PHD.
    IPR001607. Znf_UBP.
    [Graphical view]
    PfamiPF00443. UCH. 1 hit.
    PF02148. zf-UBP. 1 hit.
    [Graphical view]
    PROSITEiPS00972. USP_1. 1 hit.
    PS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    PS50271. ZF_UBP. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q0VA64-1 [UniParc]FASTAAdd to Basket

    « Hide

    MVKKRGKNLP AQDSLDAEPV CKHLRKALDE GSVKKALVNV EWTVCQECQA    50
    DNKEKNNSDD ELVEDPSVWL CLKCGHRGCG RNSASQHALN HYNTPRSEPH 100
    CLVLSVDMWS AWCYLCDNEV PYNRSSRLGQ LVDYLQRKAK AKSKSTDSAA 150
    LDEEVKAEIV AENEVKIEDQ EEKPKGQAKW DKASSTQNNS TEPTVKGLSN 200
    LGNTCFFNAV MQNLSQTPAV RELLNEAKTL KKPVTVPLPD SSSPTNVEVH 250
    LEQQPGPLTL AMWQFLTEMQ ETKKGVVTPK EVFSQVCKKA IRFKGYQQQD 300
    SQELLRYLLD GMRGEEIQRV SLAMSKSLQN TLDEEEIKKI VKDSEKRRTI 350
    PNFVDHLFGG ELTSTIMCEE CHTVSLVHEP FLDLSLPVLD DVIVKKNSQK 400
    SSAPAPERKE EEENDDGYIK ERDEASPGAS KHLQKKAKKA AKKQAKNQRR 450
    QLKMQGKTVL LTDVAKQECS EDEEEIAPNN TESEANTRPD DEVPIADGLN 500
    TMKSDLSALE NGSETIESAM ERVTEDTDLD TSGHNTESVE MNAMELVRNM 550
    ENNNNNNTDV NKTLERTEGS GVDSMEATAA VDNGNADTVC VDDTEAANGL 600
    LDCSAASMDN ELTNSLNRLK LSSDIEPTQV EIEILPDQQQ PHTQIYEVIN 650
    EDPKTAFSTL SERKDLPLDG YSVLSCLYQF THKETLTGNN KLLCNVCTRK 700
    QASRLNNSNK GEKTFVYTNA KKQMLVSDPS PILTLHLKRF QQNGFNLRKI 750
    NRHIKFPEVL DLAPFCTSKC KNIPAGESRL LYSLYGVIEH SGSMRSGHYT 800
    AFVKLRRPNQ QLCEMVLKGV IPEVSGSEPG QGSWYHISDS HVQAVSLSRV 850
    LSSQAYLLFY ERML 864
    Length:864
    Mass (Da):96,666
    Last modified:December 11, 2013 - v2
    Checksum:i8600F3A72FCAF9C7
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti106 – 1061V → M in AAI21231. 1 PublicationCurated
    Sequence conflicti405 – 4051A → V in AAI21231. 1 PublicationCurated
    Sequence conflicti452 – 4521L → Q in AAI21231. 1 PublicationCurated
    Sequence conflicti495 – 4951I → T in AAI21231. 1 PublicationCurated
    Sequence conflicti515 – 5151T → A in AAI21231. 1 PublicationCurated
    Sequence conflicti529 – 5291L → I in AAI21231. 1 PublicationCurated
    Sequence conflicti548 – 5481R → G in AAI21231. 1 PublicationCurated
    Sequence conflicti572 – 5721V → G in AAI21231. 1 PublicationCurated
    Sequence conflicti714 – 7141T → K in AAI21231. 1 PublicationCurated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AAMC01089338 Genomic DNA. No translation available.
    AAMC01089339 Genomic DNA. No translation available.
    BC121230 mRNA. Translation: AAI21231.1.
    RefSeqiNP_001072158.1. NM_001078690.1.
    UniGeneiStr.20151.

    Genome annotation databases

    EnsembliENSXETT00000043701; ENSXETP00000043701; ENSXETG00000020255.
    GeneIDi447956.
    KEGGixtr:447956.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AAMC01089338 Genomic DNA. No translation available.
    AAMC01089339 Genomic DNA. No translation available.
    BC121230 mRNA. Translation: AAI21231.1 .
    RefSeqi NP_001072158.1. NM_001078690.1.
    UniGenei Str.20151.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSXETT00000043701 ; ENSXETP00000043701 ; ENSXETG00000020255 .
    GeneIDi 447956.
    KEGGi xtr:447956.

    Organism-specific databases

    CTDi 10600.
    Xenbasei XB-GENE-1007164. usp16.

    Phylogenomic databases

    eggNOGi COG5560.
    GeneTreei ENSGT00750000117419.
    HOGENOMi HOG000154755.
    HOVERGENi HBG062704.
    KOi K11844.
    OMAi QCEDGEC.
    TreeFami TF326075.

    Family and domain databases

    Gene3Di 3.30.40.10. 1 hit.
    HAMAPi MF_03062. UBP16.
    InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028889. UCH/PAN2.
    IPR013083. Znf_RING/FYVE/PHD.
    IPR001607. Znf_UBP.
    [Graphical view ]
    Pfami PF00443. UCH. 1 hit.
    PF02148. zf-UBP. 1 hit.
    [Graphical view ]
    PROSITEi PS00972. USP_1. 1 hit.
    PS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    PS50271. ZF_UBP. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    2. NIH - Xenopus Gene Collection (XGC) project
      Submitted (AUG-2006) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Testis.

    Entry informationi

    Entry nameiUBP16_XENTR
    AccessioniPrimary (citable) accession number: Q0VA64
    Secondary accession number(s): F7BZB4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 24, 2009
    Last sequence update: December 11, 2013
    Last modified: October 1, 2014
    This is version 57 of the entry and version 2 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