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B3LGK1

- UBP4_YEAS1

UniProt

B3LGK1 - UBP4_YEAS1

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Protein

Ubiquitin carboxyl-terminal hydrolase 4

Gene

DOA4

Organism
Saccharomyces cerevisiae (strain RM11-1a) (Baker's yeast)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi

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 (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).

Enzyme regulationi

RFU1 is an inhibitor of deubiquitination activity.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei571 – 5711NucleophilePROSITE-ProRule annotation
Active sitei880 – 8801Proton acceptorPROSITE-ProRule annotation

GO - Molecular functioni

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

GO - Biological processi

  1. ubiquitin-dependent protein catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Ubl conjugation pathway

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
ORF Names:SCRG_00446
OrganismiSaccharomyces cerevisiae (strain RM11-1a) (Baker's yeast)
Taxonomic identifieri285006 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000008335: Unassembled WGS sequence

Subcellular locationi

Cytoplasm By similarity. Late endosome membrane By similarity; Peripheral membrane protein By similarity
Note: Recruited to the late endosome by BRO1.By similarity

GO - Cellular componenti

  1. endosome Source: UniProtKB-KW
  2. membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endosome, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 926926Ubiquitin carboxyl-terminal hydrolase 4PRO_0000376822Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei443 – 4431PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Interactioni

Subunit structurei

Interacts with BRO1, RFU1 and VPS32. Associates with the 26S proteasome (By similarity).By similarity

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini205 – 328124RhodanesePROSITE-ProRule annotationAdd
BLAST
Domaini562 – 923362USPAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi128 – 1347Poly-Asn
Compositional biasi386 – 3927Poly-Gln

Domaini

Residues 1-208 are essential for the localization to the late endosome and constitute a late endosome localization (LEL) domain.By similarity

Sequence similaritiesi

Belongs to the peptidase C19 family.Curated
Contains 1 rhodanese domain.PROSITE-ProRule annotation
Contains 1 USP domain.Curated

Phylogenomic databases

OrthoDBiEOG7R2BSX.

Family and domain databases

Gene3Di3.40.250.10. 1 hit.
InterProiIPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR001763. Rhodanese-like_dom.
IPR028889. UCH/PAN2.
[Graphical view]
PfamiPF00581. Rhodanese. 1 hit.
PF00443. UCH. 1 hit.
[Graphical view]
SMARTiSM00450. RHOD. 1 hit.
[Graphical view]
SUPFAMiSSF52821. SSF52821. 1 hit.
PROSITEiPS50206. RHODANESE_3. 1 hit.
PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B3LGK1-1 [UniParc]FASTAAdd to Basket

« Hide

        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 NSFAHVAPIN 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 KKIPISPIKF 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
Length:926
Mass (Da):105,188
Last modified:September 2, 2008 - v1
Checksum:iBE75CFBAE9C1A9F6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CH408043 Genomic DNA. Translation: EDV08230.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CH408043 Genomic DNA. Translation: EDV08230.1 .

3D structure databases

ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Phylogenomic databases

OrthoDBi EOG7R2BSX.

Family and domain databases

Gene3Di 3.40.250.10. 1 hit.
InterProi IPR018200. Pept_C19ubi-hydrolase_C_CS.
IPR001394. Peptidase_C19_UCH.
IPR001763. Rhodanese-like_dom.
IPR028889. UCH/PAN2.
[Graphical view ]
Pfami PF00581. Rhodanese. 1 hit.
PF00443. UCH. 1 hit.
[Graphical view ]
SMARTi SM00450. RHOD. 1 hit.
[Graphical view ]
SUPFAMi SSF52821. SSF52821. 1 hit.
PROSITEi PS50206. RHODANESE_3. 1 hit.
PS00972. USP_1. 1 hit.
PS00973. USP_2. 1 hit.
PS50235. USP_3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: RM11-1a.

Entry informationi

Entry nameiUBP4_YEAS1
AccessioniPrimary (citable) accession number: B3LGK1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 16, 2009
Last sequence update: September 2, 2008
Last modified: October 29, 2014
This is version 31 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete 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