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Protein

Ubiquitin carboxyl-terminal hydrolase 3

Gene

UBP3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Has an ATP-independent isopeptidase activity, cleaving at the C-terminus of the ubiquitin moiety in natural or engineered linear fusion proteins, irrespective of their size or the presence of an N-terminal extension to ubiquitin. Plays a role in regulation of silencing by interacting with SIR4. Also, in conjunction with BRE5, cleaves ubiquitin, leading to the subsequent mono-ubiquitination of SEC23.2 Publications

Miscellaneous

Present with 2210 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).1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei469NucleophilePROSITE-ProRule annotation1
Active sitei861Proton acceptorPROSITE-ProRule annotation1

GO - Molecular functioni

  • mRNA binding Source: SGD
  • thiol-dependent ubiquitin-specific protease activity Source: SGD

GO - Biological processi

  • protein deubiquitination Source: SGD
  • regulation of ER to Golgi vesicle-mediated transport Source: SGD
  • regulation of response to osmotic stress Source: SGD
  • ribophagy Source: SGD
  • ubiquitin-dependent protein catabolic process Source: InterPro

Keywordsi

Molecular functionHydrolase, Protease, Thiol protease
Biological processUbl conjugation pathway

Enzyme and pathway databases

BioCyciYEAST:G3O-30312-MONOMER
ReactomeiR-SCE-5656169 Termination of translesion DNA synthesis
R-SCE-5689880 Ub-specific processing proteases

Protein family/group databases

MEROPSiC19.004

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin carboxyl-terminal hydrolase 3 (EC:3.4.19.12)
Alternative name(s):
Deubiquitinating enzyme 3
Ubiquitin thioesterase 3
Ubiquitin-specific-processing protease 3
Gene namesi
Name:UBP3
Ordered Locus Names:YER151C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi

Organism-specific databases

EuPathDBiFungiDB:YER151C
SGDiS000000953 UBP3

Subcellular locationi

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000805881 – 912Ubiquitin carboxyl-terminal hydrolase 3Add BLAST912

Proteomic databases

MaxQBiQ01477
PaxDbiQ01477
PRIDEiQ01477

PTM databases

iPTMnetiQ01477

Interactioni

Subunit structurei

Heterotetramer with BRE5; contains two molecules of BRE5 and two molecules of UBP3.2 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi36901, 1133 interactors
DIPiDIP-4255N
IntActiQ01477, 403 interactors
MINTiQ01477
STRINGi4932.YER151C

Structurei

Secondary structure

1912
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi208 – 212Combined sources5
Helixi214 – 228Combined sources15

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2QIYX-ray1.69C/D190-233[»]
ProteinModelPortaliQ01477
SMRiQ01477
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ01477

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini460 – 911USPAdd BLAST452

Sequence similaritiesi

Belongs to the peptidase C19 family.Curated

Phylogenomic databases

GeneTreeiENSGT00550000074994
HOGENOMiHOG000141876
InParanoidiQ01477
KOiK11841
OMAiHLKWFVY
OrthoDBiEOG092C0VQG

Family and domain databases

InterProiView protein in InterPro
IPR001394 Peptidase_C19_UCH
IPR018200 USP_CS
IPR028889 USP_dom
PfamiView protein in Pfam
PF00443 UCH, 1 hit
PROSITEiView protein in PROSITE
PS00972 USP_1, 1 hit
PS00973 USP_2, 1 hit
PS50235 USP_3, 1 hit

Sequencei

Sequence statusi: Complete.

Q01477-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNMQDANKEE SYSMYPKTSS PPPPTPTNMQ IPIYQAPLQM YGYTQAPYLY
60 70 80 90 100
PTQIPAYSFN MVNQNQPIYH QSGSPHHLPP QNNINGGSTT NNNNINKKKW
110 120 130 140 150
HSNGITNNNG SSGNQGANSS GSGMSYNKSH TYHHNYSNNH IPMMASPNSG
160 170 180 190 200
SNAGMKKQTN SSNGNGSSAT SPSYSSYNSS SQYDLYKFDV TKLKNLKENS
210 220 230 240 250
SNLIQLPLFI NTTEAEFAAA SVQRYELNMK ALNLNSESLE NSSVEKSSAH
260 270 280 290 300
HHTKSHSIPK HNEEVKTETH GEEEDAHDKK PHASKDAHEL KKKTEVKKED
310 320 330 340 350
AKQDRNEKVI QEPQATVLPV VDKKEPEESV EENTSKTSSP SPSPPAAKSW
360 370 380 390 400
SAIASDAIKS RQASNKTVSG SMVTKTPISG TTAGVSSTNM AAATIGKSSS
410 420 430 440 450
PLLSKQPQKK DKKYVPPSTK GIEPLGSIAL RMCFDPDFIS YVLRNKDVEN
460 470 480 490 500
KIPVHSIIPR GIINRANICF MSSVLQVLLY CKPFIDVINV LSTRNTNSRV
510 520 530 540 550
GTSSCKLLDA CLTMYKQFDK ETYEKKFLEN ADDAEKTTES DAKKSSKSKS
560 570 580 590 600
FQHCATADAV KPDEFYKTLS TIPKFKDLQW GHQEDAEEFL THLLDQLHEE
610 620 630 640 650
LISAIDGLTD NEIQNMLQSI NDEQLKVFFI RNLSRYGKAE FIKNASPRLK
660 670 680 690 700
ELIEKYGVIN DDSTEENGWH EVSGSSKRGK KTKTAAKRTV EIVPSPISKL
710 720 730 740 750
FGGQFRSVLD IPNNKESQSI TLDPFQTIQL DISDAGVNDL ETAFKKFSEY
760 770 780 790 800
ELLPFKSSSG NDVEAKKQTF IDKLPQVLLI QFKRFSFINN VNKDNAMTNY
810 820 830 840 850
NAYNGRIEKI RKKIKYGHEL IIPEESMSSI TLKNNTSGID DRRYKLTGVI
860 870 880 890 900
YHHGVSSDGG HYTADVYHSE HNKWYRIDDV NITELEDDDV LKGGEEASDS
910
RTAYILMYQK RN
Length:912
Mass (Da):101,917
Last modified:July 1, 1993 - v1
Checksum:i337FD05527C5542D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M94917 Genomic DNA Translation: AAA35191.1
U18917 Genomic DNA Translation: AAB64678.1
BK006939 Genomic DNA Translation: DAA07812.1
PIRiB44450
RefSeqiNP_011078.3, NM_001179041.3

Genome annotation databases

EnsemblFungiiYER151C; YER151C; YER151C
GeneIDi856895
KEGGisce:YER151C

Entry informationi

Entry nameiUBP3_YEAST
AccessioniPrimary (citable) accession number: Q01477
Secondary accession number(s): D3DM58
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 1993
Last sequence update: July 1, 1993
Last modified: May 23, 2018
This is version 163 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Peptidase families
    Classification of peptidase families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families
  4. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  5. Yeast chromosome V
    Yeast (Saccharomyces cerevisiae) chromosome V: entries and gene names

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