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O96612

- UBPB_DICDI

UniProt

O96612 - UBPB_DICDI

Protein

Ubiquitin hydrolase B

Gene

ubpB

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 68 (01 Oct 2014)
      Sequence version 1 (01 May 1999)
      Previous versions | rss
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    Functioni

    Required for proper prespore cell patterning. Plays a role in stabilizing mkkA by preventing it from being targeted for degradation. ubcB and ubpB differentially control ubiquitination/deubiquitination and degradation of mkkA in a cell-type-specific and temporally regulated manner.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).

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei399 – 3991NucleophilePROSITE-ProRule annotation
    Active sitei408 – 4081Proton acceptorPROSITE-ProRule annotation

    GO - Molecular functioni

    1. cysteine-type peptidase activity Source: UniProtKB-KW
    2. ubiquitinyl hydrolase activity Source: InterPro

    GO - Biological processi

    1. protein deubiquitination Source: dictyBase
    2. ubiquitin-dependent protein catabolic process Source: InterPro

    Keywords - Molecular functioni

    Hydrolase, Protease, Thiol protease

    Keywords - Biological processi

    Ubl conjugation pathway

    Protein family/group databases

    MEROPSiC19.A68.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin hydrolase B (EC:3.4.19.12)
    Gene namesi
    Name:ubpB
    ORF Names:DDB_G0275021
    OrganismiDictyostelium discoideum (Slime mold)
    Taxonomic identifieri44689 [NCBI]
    Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
    ProteomesiUP000002195: Chromosome 2, UP000002195: Unassembled WGS sequence

    Organism-specific databases

    dictyBaseiDDB_G0275021. ubpB.

    Pathology & Biotechi

    Disruption phenotypei

    Null cells differentiate into prestalk cells preferentially. They develop precociously and exhibit abnormal cell-type patterning with an increase in the prestalk domain and reduction in the prespore domain in the slug, and spore domain in a fruiting body. Null cells do not form the normal spherical sori seen in mature wild-type fruiting bodies. Instead, the sori remain elongated, similar to those seen in wild-type fruiting bodies that are not fully mature. The upper and lower cups of the fruiting body, which are derived from prestalk cells and anterior-like cells, are enlarged. The spore-containing region is reduced. Null cells form fruiting bodies at approximately 17 hours and exhibit precocious expression of the spore marker. The expression levels of the prespore/spore markers are lower in null cells compared to wild-type cells, whereas expression of the prestalk/stalk marker is elevated slightly. The loss of gene function, might lead to increased mkkA ubiquitination and a more rapid turnover of mkkA. This should result in a reduced level of mkkA activity, producing the above mentioned mkkA null cell type phenotype.1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 451451Ubiquitin hydrolase BPRO_0000389021Add
    BLAST

    Expressioni

    Developmental stagei

    Found at low levels in vegetative cells and at higher levels during aggregation and mound formation (4 and 8 hours of development).1 Publication

    Interactioni

    Subunit structurei

    Interacts with mkkA (via F-box/WD40 domains).1 Publication

    Protein-protein interaction databases

    STRINGi44689.DDB_0191402.

    Structurei

    3D structure databases

    ProteinModelPortaliO96612.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini19 – 450432USPAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi88 – 914Poly-Thr
    Compositional biasi92 – 954Poly-Ser
    Compositional biasi136 – 1449Poly-Gln

    Sequence similaritiesi

    Belongs to the peptidase C19 family.Curated
    Contains 1 USP domain.Curated

    Phylogenomic databases

    eggNOGiCOG5560.
    InParanoidiO96612.
    KOiK11841.
    OMAiINTSNTC.
    PhylomeDBiO96612.

    Family and domain databases

    InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028889. UCH/PAN2.
    [Graphical view]
    PfamiPF00443. UCH. 1 hit.
    [Graphical view]
    PROSITEiPS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O96612-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKNIEEMPSK SQLVAHRSRG LINTSNTCFM NVILQSLTGC QLFLRVIKNL    50
    SDLEDLGKYP TLHSFNQFYT EYFSNPTSNI LNNNSNSTTT TSSSSTTATT 100
    TSTSNNNKSQ TPTSPIQQHH QSQTNGLSNQ PSVATQSQQQ QQPQPPINPK 150
    HFNDLVKSFN SKVSPVPQTT VSPHSMVQVS KKKLKLQLYN NSLPQTICQQ 200
    DAQEFLVFLL DLIHEEFLTL IKDIDIPKED DKSTPTSTSI VDDNWEVVGK 250
    KGKTAIITNS QQELPKTPIS QIFSGVLRSS FNRTGSKESI TVEPFYCLHL 300
    DIRPEEINSL EDALKFFMKP EIIEGYTCST KKIEISASKS WSFESLPRIL 350
    IVHFKRFAFE SDTSKKLDKL IRFPTQLSLS TASNHQTQKK YSLFSVVSHH 400
    GRGLSQGHYT CDIYQPQQAQ WIRYDDSTFT EVKEQDVLNR EAYLLLYQLV 450
    N 451
    Length:451
    Mass (Da):51,134
    Last modified:May 1, 1999 - v1
    Checksum:iDADCD2CD07AFBFD7
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF093690 mRNA. Translation: AAC97115.1.
    AAFI02000013 Genomic DNA. Translation: EAL69791.1. Different termination.
    RefSeqiXP_643807.1. XM_638715.1.

    Genome annotation databases

    EnsemblProtistsiDDB0191402; DDB0191402; DDB_G0275021.
    GeneIDi8619853.
    KEGGiddi:DDB_G0275021.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF093690 mRNA. Translation: AAC97115.1 .
    AAFI02000013 Genomic DNA. Translation: EAL69791.1 . Different termination.
    RefSeqi XP_643807.1. XM_638715.1.

    3D structure databases

    ProteinModelPortali O96612.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 44689.DDB_0191402.

    Protein family/group databases

    MEROPSi C19.A68.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblProtistsi DDB0191402 ; DDB0191402 ; DDB_G0275021 .
    GeneIDi 8619853.
    KEGGi ddi:DDB_G0275021.

    Organism-specific databases

    dictyBasei DDB_G0275021. ubpB.

    Phylogenomic databases

    eggNOGi COG5560.
    InParanoidi O96612.
    KOi K11841.
    OMAi INTSNTC.
    PhylomeDBi O96612.

    Family and domain databases

    InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
    IPR001394. Peptidase_C19_UCH.
    IPR028889. UCH/PAN2.
    [Graphical view ]
    Pfami PF00443. UCH. 1 hit.
    [Graphical view ]
    PROSITEi PS00973. USP_2. 1 hit.
    PS50235. USP_3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "A novel, putative MEK kinase controls developmental timing and spatial patterning in Dictyostelium and is regulated by ubiquitin-mediated protein degradation."
      Chung C.Y., Reddy T.B.K., Zhou K., Firtel R.A.
      Genes Dev. 12:3564-3578(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, INTERACTION WITH MKKA, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE.
      Strain: AX3.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: AX4.
    3. "The genome of the social amoeba Dictyostelium discoideum."
      Eichinger L., Pachebat J.A., Gloeckner G., Rajandream M.A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., Tunggal B., Kummerfeld S., Madera M., Konfortov B.A., Rivero F., Bankier A.T., Lehmann R., Hamlin N.
      , Davies R., Gaudet P., Fey P., Pilcher K., Chen G., Saunders D., Sodergren E.J., Davis P., Kerhornou A., Nie X., Hall N., Anjard C., Hemphill L., Bason N., Farbrother P., Desany B., Just E., Morio T., Rost R., Churcher C.M., Cooper J., Haydock S., van Driessche N., Cronin A., Goodhead I., Muzny D.M., Mourier T., Pain A., Lu M., Harper D., Lindsay R., Hauser H., James K.D., Quiles M., Madan Babu M., Saito T., Buchrieser C., Wardroper A., Felder M., Thangavelu M., Johnson D., Knights A., Loulseged H., Mungall K.L., Oliver K., Price C., Quail M.A., Urushihara H., Hernandez J., Rabbinowitsch E., Steffen D., Sanders M., Ma J., Kohara Y., Sharp S., Simmonds M.N., Spiegler S., Tivey A., Sugano S., White B., Walker D., Woodward J.R., Winckler T., Tanaka Y., Shaulsky G., Schleicher M., Weinstock G.M., Rosenthal A., Cox E.C., Chisholm R.L., Gibbs R.A., Loomis W.F., Platzer M., Kay R.R., Williams J.G., Dear P.H., Noegel A.A., Barrell B.G., Kuspa A.
      Nature 435:43-57(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: AX4.

    Entry informationi

    Entry nameiUBPB_DICDI
    AccessioniPrimary (citable) accession number: O96612
    Secondary accession number(s): Q554A4, Q869X4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 24, 2009
    Last sequence update: May 1, 1999
    Last modified: October 1, 2014
    This is version 68 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Dictyostelium discoideum
      Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
    2. Peptidase families
      Classification of peptidase families and list of entries
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3