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O96612

- UBPB_DICDI

UniProt

O96612 - UBPB_DICDI

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Protein
Ubiquitin hydrolase B
Gene
ubpB, DDB_G0275021
Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

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 – 3991Nucleophile By similarity
Active sitei408 – 4081Proton acceptor By similarity

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
Complete GO annotation...

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 B
PRO_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.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini19 – 450432USP
Add
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.
Contains 1 USP domain.

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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 67 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

Similar proteinsi