A6ZY34 (UBP4_YEAS7) Reviewed, UniProtKB/Swiss-Prot
Last modified
March 6, 2013.
Version 31.
History...
Clusters with 
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | 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 names |
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| Organism | Saccharomyces cerevisiae (strain YJM789) (Baker's yeast) [Complete proteome] | ||||||
| Taxonomic identifier | 307796 [NCBI] | ||||||
| Taxonomic lineage | Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›  |
Protein attributes
| Sequence length | 926 AA. |
| Sequence status | Complete. |
| Protein existence | Inferred from homology |
General annotation (Comments)
| Function | 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. |
| Catalytic activity | 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 regulation | RFU1 is an inhibitor of deubiquitination activity By similarity. |
| Subunit structure | Interacts with BRO1, RFU1 and VPS32. Associates with the 26S proteasome By similarity. |
| Subcellular location | Cytoplasm By similarity. Late endosome membrane; Peripheral membrane protein By similarity. Note: Recruited to the late endosome by BRO1 By similarity. |
| Domain | Residues 1-208 are essential for the localization to the late endosome and constitute a late endosome localization (LEL) domain By similarity. |
| Sequence similarities | Belongs to the peptidase C19 family. Contains 1 rhodanese domain. |
Ontologies
| Keywords | |
|---|---|
| Biological process | Ubl conjugation pathway |
| Cellular component | Cytoplasm Endosome Membrane |
| Molecular function | Hydrolase Protease Thiol protease |
| PTM | Phosphoprotein |
| Technical term | Complete proteome |
| Gene Ontology (GO) | |
| Biological_process | ubiquitin-dependent protein catabolic process Inferred from electronic annotation. Source: InterPro |
| Cellular_component | late endosome membrane Inferred from electronic annotation. Source: UniProtKB-SubCell |
| Molecular_function | cysteine-type peptidase activity Inferred from electronic annotation. Source: UniProtKB-KW ubiquitin thiolesterase activityInferred from electronic annotation. Source: InterPro |
| Complete GO annotation... | |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 926 | 926 | Ubiquitin carboxyl-terminal hydrolase 4 | PRO_0000376823 | |||||
Regions | |||||||||
| Domain | 205 – 328 | 124 | Rhodanese | ||||||
| Compositional bias | 386 – 392 | 7 | Poly-Gln | ||||||
Sites | |||||||||
| Active site | 571 | 1 | Nucleophile By similarity | ||||||
| Active site | 880 | 1 | Proton acceptor By similarity | ||||||
Amino acid modifications | |||||||||
| Modified residue | 414 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 443 | 1 | Phosphoserine By similarity | ||||||
Sequences
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References
| [1] | "Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789." Wei W., McCusker J.H., Hyman R.W., Jones T., Ning Y., Cao Z., Gu Z., Bruno D., Miranda M., Nguyen M., Wilhelmy J., Komp C., Tamse R., Wang X., Jia P., Luedi P., Oefner P.J., David L.  Steinmetz L.M.Proc. Natl. Acad. Sci. U.S.A. 104:12825-12830(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: YJM789. |
Cross-references
Sequence databases | |
|---|---|
| EMBL GenBank DDBJ | AAFW02000145 Genomic DNA. Translation: EDN60414.1. |
3D structure databases | |
| ProteinModelPortal | A6ZY34. |
| ModBase | Search... |
Protocols and materials databases | |
| StructuralBiologyKnowledgebase | Search... |
Family and domain databases | |
| Gene3D | 3.40.250.10. 1 hit. |
| InterPro | IPR018200. Pept_C19ubi-hydrolase_C_CS. IPR001394. Peptidase_C19. IPR001763. Rhodanese-like_dom. [Graphical view] |
| Pfam | PF00443. UCH. 1 hit. [Graphical view] |
| SMART | SM00450. RHOD. 1 hit. [Graphical view] |
| SUPFAM | SSF52821. Rhodanese-like. 1 hit. |
| PROSITE | PS50206. RHODANESE_3. 1 hit. PS00972. UCH_2_1. 1 hit. PS00973. UCH_2_2. 1 hit. PS50235. UCH_2_3. 1 hit. [Graphical view] |
| ProtoNet | Search... |
Entry information
| Entry name | UBP4_YEAS7 | ||||||||
| Accession | Primary (citable) accession number: A6ZY34 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Fungal Protein Annotation Program | ||||||||
Relevant documents
| Peptidase families Classification of peptidase families and list of entries |
| SIMILARITY comments Index of protein domains and families |