UBP6 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: UBP6
Primary source: SGD:S000001906
Locus tag: YFR010W
See related: AllianceGenome:SGD:S000001906; FungiDB:YFR010W; VEuPathDB:YFR010W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Summary: Enables thiol-dependent deubiquitinase. Involved in mitochondria-associated ubiquitin-dependent protein catabolic process; negative regulation of proteasomal protein catabolic process; and protein deubiquitination. Part of proteasome regulatory particle. Used to study prion disease. Orthologous to human USP14 (ubiquitin specific peptidase 14). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:: chromosome: VI

Exon count:: 1

Sequence:: Chromosome: VI; NC_001138.5 (165067..166566)

Chromosome VI - NC_001138.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001138.5

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

An excess level of Msn2 impairs endocytic degradation of Gnp1 through dysfunction of Ubp6 and other deubiquitinating enzymes.
Title: Effect of the deubiquitination enzyme gene UBP6 on the stress-responsive transcription factor Msn2-mediated control of the amino acid permease Gnp1 in yeast.
Electron microscopy analyses reveal that ubiquitin-bound Ubp6 contacts the N ring and AAA+ ring of the ATPase hexamer and is in proximity to the deubiquitinase Rpn11 in the proteasome.
Title: Ubp6 deubiquitinase controls conformational dynamics and substrate degradation of the 26S proteasome.
Fluorescently labeled tetra-Ub chains revealed endo-chain preference for Ubp6 acting on Lys(48) and random action for Rpn11.
Title: Disassembly of Lys11 and mixed linkage polyubiquitin conjugates provides insights into function of proteasomal deubiquitinases Rpn11 and Ubp6.
Results demonstrate that Sem1p and Ubp6p maintain telomeric heterochromatin structure through modulation of histone covalent modifications and association of silencing factors independently of the proteolytic function of the proteasome.
Title: Sem1p and Ubp6p orchestrate telomeric silencing by modulating histone H2B ubiquitination and H3 acetylation.
Results suggest that Ubp6 regulates both the nature and magnitude of proteasome activity.
Title: Deubiquitinating enzyme Ubp6 functions noncatalytically to delay proteasomal degradation.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables cysteine-type deubiquitinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables cysteine-type deubiquitinase activity	IDA Inferred from Direct Assay more info	PubMed
enables cysteine-type deubiquitinase activity	IEA Inferred from Electronic Annotation more info
enables cysteine-type deubiquitinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables cysteine-type peptidase activity	IEA Inferred from Electronic Annotation more info
enables proteasome binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in mitochondria-associated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of proteasomal protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in protein deubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein deubiquitination	IEA Inferred from Electronic Annotation more info
involved_in protein deubiquitination	IGI Inferred from Genetic Interaction more info	PubMed
involved_in protein deubiquitination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in proteolysis	IEA Inferred from Electronic Annotation more info
involved_in regulation of proteasomal protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of proteasome complex	IDA Inferred from Direct Assay more info	PubMed
part_of proteasome regulatory particle	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: ubiquitin-specific protease UBP6

NP_116665.1

EC 3.4.19.12

Ubiquitin-specific protease; situated in the base subcomplex of the 26S proteasome, releases free ubiquitin from branched polyubiquitin chains en bloc, rather than from the distal tip of the chain; negatively regulates degradation of ubiquitinated proteins by the proteasome; works in opposition to Hul5p polyubiquitin elongation activity; mutant has aneuploidy tolerance; human homolog UBP14 complements yeast null mutant

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001138.5 Reference assembly

Range

165067..166566

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001179975.1 → NP_116665.1 TPA: ubiquitin-specific protease UBP6 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_116665.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VTP0, P43593

UniProtKB/TrEMBL

A7A248, B3LUL8, B5VI36, C7GYB6, C8Z7U4, G2WDE9, N1P382

Conserved Domains (2) summary

cd02657
Location:110 → 495

Peptidase_C19A; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl ...

cl28922
Location:5 → 78

Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold