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Q5RCD3

- UBP4_PONAB

UniProt

Q5RCD3 - UBP4_PONAB

Protein

Ubiquitin carboxyl-terminal hydrolase 4

Gene

USP4

Organism
Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 58 (01 Oct 2014)
      Sequence version 1 (21 Dec 2004)
      Previous versions | rss
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    Functioni

    Hydrolase that deubiquitinates target proteins such as the receptor ADORA2A, PDPK1 and TRIM21. Deubiquitination of ADORA2A increases the amount of functional receptor at the cell surface. Plays a role in the regulation of quality control in the ER 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 sitei311 – 3111NucleophilePROSITE-ProRule annotation
    Metal bindingi461 – 4611ZincBy similarity
    Metal bindingi464 – 4641ZincBy similarity
    Metal bindingi799 – 7991ZincBy similarity
    Metal bindingi802 – 8021ZincBy similarity
    Active sitei881 – 8811Proton acceptorPROSITE-ProRule annotation

    GO - Molecular functioni

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

    GO - Biological processi

    1. negative regulation of protein ubiquitination Source: UniProtKB
    2. protein deubiquitination Source: UniProtKB
    3. protein localization to cell surface Source: UniProtKB
    4. regulation of protein stability Source: UniProtKB
    5. ubiquitin-dependent protein catabolic process Source: InterPro

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Ubl conjugation pathway

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 4 (EC:3.4.19.12)
    Alternative name(s):
    Deubiquitinating enzyme 4
    Ubiquitin thioesterase 4
    Ubiquitin-specific-processing protease 4
    Gene namesi
    Name:USP4
    OrganismiPongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
    Taxonomic identifieri9601 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaePongo
    ProteomesiUP000001595: Unplaced

    Subcellular locationi

    Cytoplasm By similarity. Nucleus By similarity
    Note: Shuttles between the nucleus and cytoplasm. Exported to the cytoplasm in a CRM1-dependent manner and recycled back to the nucleus via the importin alpha/beta heterodimeric import receptor. The relative amounts found in the nucleus and cytoplasm vary according to the cell type By similarity.By similarity

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB
    2. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 963963Ubiquitin carboxyl-terminal hydrolase 4PRO_0000301667Add
    BLAST

    Post-translational modificationi

    Monoubiquitinated by TRIM21. Ubiquitination does not lead to its proteasomal degradation. Autodeubiquitinated By similarity.By similarity

    Keywords - PTMi

    Ubl conjugation

    Proteomic databases

    PRIDEiQ5RCD3.

    Interactioni

    Subunit structurei

    Interacts with RB1 (both dephosphorylated and hypophosphorylated forms). Interacts with ADORA2A (via cytoplasmic C-terminus); the interaction is direct. Interacts with RB1, RBL1 and RBL2 By similarity.By similarity

    Structurei

    3D structure databases

    ProteinModelPortaliQ5RCD3.
    SMRiQ5RCD3. Positions 1-124.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini11 – 122112DUSPPROSITE-ProRule annotationAdd
    BLAST
    Domaini142 – 22685Ubiquitin-like 1Add
    BLAST
    Domaini302 – 923622USPAdd
    BLAST
    Domaini483 – 57189Ubiquitin-like 2Add
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni405 – 4073Necessary for interaction with RBL2By similarity
    Regioni459 – 4635Necessary for interaction with RB1 and RBL2By similarity

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi133 – 1419Nuclear export signalBy similarity
    Motifi767 – 7726Nuclear localization signalBy similarity

    Domaini

    The Ubiquitin-like domain 2 inserts into the catalytic domain and competes with the ubiquitin substrate, partially inhibiting DUB activity.By similarity

    Sequence similaritiesi

    Belongs to the peptidase C19 family. USP4 subfamily.Curated
    Contains 1 DUSP domain.PROSITE-ProRule annotation
    Contains 2 ubiquitin-like domains.Curated
    Contains 1 USP domain.Curated

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    HOVERGENiHBG000864.
    InParanoidiQ5RCD3.
    KOiK11835.

    Family and domain databases

    Gene3Di3.30.2230.10. 1 hit.
    InterProiIPR006615. Pept_C19_DUSP.
    IPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028135. Ub_USP-typ.
    IPR028889. UCH/PAN2.
    IPR028134. USP.
    [Graphical view]
    PANTHERiPTHR24006:SF360. PTHR24006:SF360. 1 hit.
    PfamiPF06337. DUSP. 1 hit.
    PF14836. Ubiquitin_3. 1 hit.
    PF00443. UCH. 1 hit.
    [Graphical view]
    SMARTiSM00695. DUSP. 1 hit.
    [Graphical view]
    SUPFAMiSSF143791. SSF143791. 1 hit.
    PROSITEiPS51283. DUSP. 1 hit.
    PS00972. USP_1. 1 hit.
    PS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q5RCD3-1 [UniParc]FASTAAdd to Basket

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    MAEGGGCRER PDAETQKSEL GALMRTTLQR GAQWYLIDSR WFKQWKKYVG    50
    FGSWDMYNVG EHNLFPGPID NSGLFSDPES QTLKEHLIDE LDYVLVPTEA 100
    WNKLLNWYGC VEGQQPIVRK VVEHGLFVKH CKVEVYLLEL KLCENSDPTN 150
    VLSCHFSKAD TIATIEKEMR KLFNIPAERE ARLWNKYMSN TYEQLSKLDN 200
    TVQDAGLYLG QVLVIEPQNE DGTWPRQTLQ SKSSTAPSRN FTTSPKSSAS 250
    PYSSVSDSLI ANGDSTSTCG MHSSGVSRGG SGFSASYNCQ EPPSSHIQPG 300
    LCGLGNLGNT CFMNSALQCL SNTAPLTDYF LKDEYEAEIN RDNPLGMKGE 350
    IAEAYAELIK QMWSGRDAHV APRMFKTQVG RFAPQFSGYQ QQDSQELLAF 400
    LLDGLHEDLN RVKKKPYLEL KDANGRPDVV VAKEAWENHR LRNDSVIVDT 450
    FHGLFKSTLV CPECAKVSVT FDPFCYLTLP LPLKKDRVME VFLVPADPHC 500
    RPTQYRVTVP LMGAVSDLCE ALSRLSGIAA ENMVVADVYN HRFHKIFQMD 550
    EGLNHIMPRD DIFVYEVCST SVDGSECVTL PVYFRERKSR PSSTSSASAL 600
    YGQPLLLSVP KHKLTLESLY QAVCDRISRY VKQPLPDEFG SSPLEPGACN 650
    GSRNSCEGED EEEMEHQEEG KEQLSETEGS GEDEPGSDPS ETTQKKIKGQ 700
    PCPKRLFTFS LVNSYGTADI NSLAADGKLL KLNSRSTLAM DWDSETRSLY 750
    YDEQESEAYE KHVSMLQPQK KKKTTVALRD CIELFTTMET LGEHDPWYCP 800
    NCKKHQQATK KSDLWSLPKI LVVHLKRFSY NRYWRDKLDT VVEFPIRGLN 850
    MSEFVCNLSA RPYVYDLIAV SNHYGAMGVG HYTAYAKNKL NGKWYYFDDS 900
    NVSLASEDQI VTKAAYVLFY QRRDDEFYKT PSLSSSGSSD GGTRPSSSQQ 950
    GLGDDEACSM DTN 963
    Length:963
    Mass (Da):108,318
    Last modified:December 21, 2004 - v1
    Checksum:i818FB26F04B5AD2D
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CR858339 mRNA. Translation: CAH90574.1.
    RefSeqiNP_001125307.1. NM_001131835.1.
    UniGeneiPab.8716.

    Genome annotation databases

    GeneIDi100172206.
    KEGGipon:100172206.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CR858339 mRNA. Translation: CAH90574.1 .
    RefSeqi NP_001125307.1. NM_001131835.1.
    UniGenei Pab.8716.

    3D structure databases

    ProteinModelPortali Q5RCD3.
    SMRi Q5RCD3. Positions 1-124.
    ModBasei Search...
    MobiDBi Search...

    Proteomic databases

    PRIDEi Q5RCD3.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 100172206.
    KEGGi pon:100172206.

    Organism-specific databases

    CTDi 7375.

    Phylogenomic databases

    HOVERGENi HBG000864.
    InParanoidi Q5RCD3.
    KOi K11835.

    Family and domain databases

    Gene3Di 3.30.2230.10. 1 hit.
    InterProi IPR006615. Pept_C19_DUSP.
    IPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028135. Ub_USP-typ.
    IPR028889. UCH/PAN2.
    IPR028134. USP.
    [Graphical view ]
    PANTHERi PTHR24006:SF360. PTHR24006:SF360. 1 hit.
    Pfami PF06337. DUSP. 1 hit.
    PF14836. Ubiquitin_3. 1 hit.
    PF00443. UCH. 1 hit.
    [Graphical view ]
    SMARTi SM00695. DUSP. 1 hit.
    [Graphical view ]
    SUPFAMi SSF143791. SSF143791. 1 hit.
    PROSITEi PS51283. DUSP. 1 hit.
    PS00972. USP_1. 1 hit.
    PS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. The German cDNA consortium
      Submitted (NOV-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Brain cortex.

    Entry informationi

    Entry nameiUBP4_PONAB
    AccessioniPrimary (citable) accession number: Q5RCD3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 11, 2007
    Last sequence update: December 21, 2004
    Last modified: October 1, 2014
    This is version 58 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