UniProtKB - P32571 (UBP4_YEAST)
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Protein
Ubiquitin carboxyl-terminal hydrolase 4
Gene
DOA4
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Functioni
Ubiquitin thioesterase that acts at the late endosome/prevacuolar compartment to recover ubiquitin from ubiquitinated membrane proteins en route to the vacuole. Removes also ubiquitin from soluble proteins targeted to proteasomes. Is essential to maintain a normal level of free ubiquitin. Involved in the ammonium-induced down-regulation of the GAP1 permease and the UME3 destruction in response to oxidative stress. Has a role in the RAD9 checkpoint response to TOP1 poisons. Required for promoting coordination of DNA replication and avoids DNA overreplication.19 Publications
Miscellaneous
Present with 428 molecules/cell in log phase SD medium.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).
Enzyme regulationi
RFU1 is an inhibitor of deubiquitination activity.1 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 571 | Nucleophile | 1 | |
Active sitei | 880 | Proton acceptorPROSITE-ProRule annotation | 1 |
GO - Molecular functioni
GO - Biological processi
- ATP export Source: SGD
- endocytosis Source: SGD
- free ubiquitin chain depolymerization Source: SGD
- intralumenal vesicle formation Source: SGD
- protein deubiquitination Source: InterPro
- regulation of DNA replication Source: SGD
- ubiquitin-dependent protein catabolic process Source: SGD
- ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway Source: SGD
- ubiquitin recycling Source: SGD
Keywordsi
Molecular function | Hydrolase, Protease, Thiol protease |
Biological process | Ubl conjugation pathway |
Enzyme and pathway databases
BioCyci | YEAST:G3O-29676-MONOMER. |
Reactomei | R-SCE-1358803. Downregulation of ERBB2:ERBB3 signaling. R-SCE-5689880. Ub-specific processing proteases. R-SCE-5696395. Formation of Incision Complex in GG-NER. |
Protein family/group databases
MEROPSi | C19.005. |
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 Vacuole biogenesis protein SSV7 |
Gene namesi | Name:DOA4 Synonyms:DOS1, MUT4, NPI2, SSV7, UBP4 Ordered Locus Names:YDR069C ORF Names:D4270, YD8554.02C, YD9609.23C |
Organismi | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) |
Taxonomic identifieri | 559292 [NCBI] |
Taxonomic lineagei | Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › |
Proteomesi |
|
Organism-specific databases
EuPathDBi | FungiDB:YDR069C. |
SGDi | S000002476. DOA4. |
Pathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 571 | C → S or A: Impairs deubiquitination activity and protein sorting into the MVB pathway. 2 Publications | 1 | |
Mutagenesisi | 826 | Y → A: Impairs deubiquitination activity and binding to BRO1; when associated with A-827 and A-829. 1 Publication | 1 | |
Mutagenesisi | 827 | P → A: Impairs deubiquitination activity and binding to BRO1; when associated with A-826 and A-829. 1 Publication | 1 | |
Mutagenesisi | 829 | L → A: Impairs deubiquitination activity and binding to BRO1; when associated with A-826 and A-827. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000080589 | 1 – 926 | Ubiquitin carboxyl-terminal hydrolase 4Add BLAST | 926 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 443 | PhosphoserineCombined sources | 1 |
Keywords - PTMi
PhosphoproteinProteomic databases
MaxQBi | P32571. |
PaxDbi | P32571. |
PRIDEi | P32571. |
PTM databases
CarbonylDBi | P32571. |
iPTMneti | P32571. |
Interactioni
Subunit structurei
Interacts with BRO1, RFU1 and VPS32. Associates with the 26S proteasome.5 Publications
Binary interactionsi
Protein-protein interaction databases
BioGridi | 32124. 274 interactors. |
DIPi | DIP-5298N. |
IntActi | P32571. 40 interactors. |
MINTi | P32571. |
STRINGi | 4932.YDR069C. |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 205 – 328 | RhodanesePROSITE-ProRule annotationAdd BLAST | 124 | |
Domaini | 562 – 923 | USPAdd BLAST | 362 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 386 – 392 | Poly-Gln | 7 |
Domaini
Residues 1-208 are essential for the localization to the late endosome and constitute a late endosome localization (LEL) domain.1 Publication
Sequence similaritiesi
Belongs to the peptidase C19 family.Curated
Phylogenomic databases
GeneTreei | ENSGT00860000133682. |
HOGENOMi | HOG000248489. |
InParanoidi | P32571. |
KOi | K11839. |
OMAi | HGHGSYA. |
OrthoDBi | EOG092C5R71. |
Family and domain databases
Gene3Di | 3.40.250.10. 1 hit. |
InterProi | View protein in InterPro IPR001394. Peptidase_C19_UCH. IPR001763. Rhodanese-like_dom. IPR036873. Rhodanese-like_dom_sf. IPR018200. USP_CS. IPR028889. USP_dom. |
Pfami | View protein in Pfam PF00581. Rhodanese. 1 hit. PF00443. UCH. 1 hit. |
SMARTi | View protein in SMART SM00450. RHOD. 1 hit. |
SUPFAMi | SSF52821. SSF52821. 1 hit. |
PROSITEi | View protein in PROSITE PS50206. RHODANESE_3. 1 hit. PS00972. USP_1. 1 hit. PS00973. USP_2. 1 hit. PS50235. USP_3. 1 hit. |
i Sequence
Sequence statusi: Complete.
P32571-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MEQNIISTIR DECIRHRSKY LTIAQLTAIA EAKINEFIIT GKAKDQDLSS
60 70 80 90 100
LLDKCIDILS IYKKNSKDIK NIISCKNKGA MISSNSVMII QLNYVYYKVI
110 120 130 140 150
HIIVTTNIPH LSEFAKIKLH KSTSDEGNGN NNNNEFQLMN IYNTLLETLL
160 170 180 190 200
KDENIAKIKS FIKSSIKQTK LNHEQEECNL MRTGSYITSN QLNSLISSSA
210 220 230 240 250
NSASSQMEIL LIDIRSRLEF NKSHIDTKNI ICLEPISFKM SYSDHDLEKK
260 270 280 290 300
SLITSPNSEI KMFQSRNLFK FIILYTDANE YNVKQQSVLL DILVNHSFEK
310 320 330 340 350
PISDDFTKIF ILESGFPGWL KSNYGRQVSS SFPSNNNIKD DSVYINGNTS
360 370 380 390 400
GLSLQHLPKM SPSIRHSMDD SMKEMLVAPT PLNHLQQQQQ QQSDNDHVLK
410 420 430 440 450
RSSSFKKLFS NYTSPNPKNS NSNLYSISSL SISSSPSPLP LHSPDPVKGN
460 470 480 490 500
SLPINYPETP HLWKNSETDF MTNQREQLNH NSFAHIAPIN TKAITSPSRT
510 520 530 540 550
ATPKLQRFPQ TISMNLNMNS NGHSSATSTI QPSCLSLSNN DSLDHTDVTP
560 570 580 590 600
TSSHNYDLDF AVGLENLGNS CYMNCIIQCI LGTHELTQIF LDDSYAKHIN
610 620 630 640 650
INSKLGSKGI LAKYFARLVH MMYKEQVDGS KKISISPIKF KLACGSVNSL
660 670 680 690 700
FKTASQQDCQ EFCQFLLDGL HEDLNQCGSN PPLKELSQEA EARREKLSLR
710 720 730 740 750
IASSIEWERF LTTDFSVIVD LFQGQYASRL KCKVCSHTST TYQPFTVLSI
760 770 780 790 800
PIPKKNSRNN ITIEDCFREF TKCENLEVDE QWLCPHCEKR QPSTKQLTIT
810 820 830 840 850
RLPRNLIVHL KRFDNLLNKN NDFVIYPFLL DLTPFWANDF DGVFPPGVND
860 870 880 890 900
DELPIRGQIP PFKYELYGVA CHFGTLYGGH YTAYVKKGLK KGWLYFDDTK
910 920
YKPVKNKADA INSNAYVLFY HRVYGV
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 327 | Q → K in AAA35105 (Ref. 2) Curated | 1 | |
Sequence conflicti | 345 | I → F in AAA35105 (Ref. 2) Curated | 1 | |
Sequence conflicti | 375 – 378 | MLVA → TASW in AAA35105 (Ref. 2) Curated | 4 | |
Sequence conflicti | 383 | N → I in AAA35105 (Ref. 2) Curated | 1 | |
Sequence conflicti | 407 | K → T in AAA35105 (Ref. 2) Curated | 1 | |
Sequence conflicti | 543 – 570 | LDHTD…NLGNS → FRSYEMLHQLLLIIMTLISR LVWENLEIP in AAA35105 (Ref. 2) CuratedAdd BLAST | 28 | |
Sequence conflicti | 580 | I → T in AAA35105 (Ref. 2) Curated | 1 | |
Sequence conflicti | 836 | W → G in AAA35105 (Ref. 2) Curated | 1 | |
Sequence conflicti | 897 | D → N in AAA35105 (Ref. 2) Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U02518 Genomic DNA. Translation: AAC48915.1. L08070 Genomic DNA. Translation: AAA35105.1. Z49209 Genomic DNA. Translation: CAA89098.1. Z46796 Genomic DNA. Translation: CAA86791.1. Z74365 Genomic DNA. Translation: CAA98887.1. X84162 Genomic DNA. Translation: CAA58985.1. BK006938 Genomic DNA. Translation: DAA11915.1. |
PIRi | S39344. |
RefSeqi | NP_010354.3. NM_001180377.3. |
Genome annotation databases
EnsemblFungii | YDR069C; YDR069C; YDR069C. |
GeneIDi | 851641. |
KEGGi | sce:YDR069C. |
Similar proteinsi
Entry informationi
Entry namei | UBP4_YEAST | |
Accessioni | P32571Primary (citable) accession number: P32571 Secondary accession number(s): D6VS55 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 1, 1993 |
Last sequence update: | February 1, 1994 | |
Last modified: | March 28, 2018 | |
This is version 181 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Fungal Protein Annotation Program |