VPS27 / YNR006W Overview
- Standard Name
- VPS27 1 2 3
- Systematic Name
- YNR006W
- SGD ID
- SGD:S000005289
- Aliases
- GRD11 6 , SSV17 , VPL23 7 , VPT27 1 , DID7 8
- Feature Type
- ORF , Verified
- Description
- Ubiquitin binding protein involved in endosomal protein sorting; K48-, K63-Ub chain binding protein that preferentially binds K63-linked chains in vitro; subunit of the ESCRT-0 complex that binds to ubiquitin via two ubiquitin-interacting motifs (UIMs) and is involved in sorting cargo into multivesicular bodies; required for recycling Golgi proteins, forming lumenal membranes and sorting ubiquitinated proteins destined for degradation 3 4 5
- Name Description
- Vacuolar Protein Sorting 1 2
- Comparative Info
-
Sequence
The S. cerevisiae Reference Genome sequence is derived from laboratory strain S288C. Download DNA or protein sequence, view genomic context and coordinates. Click "Sequence Details" to view all sequence information for this locus, including that for other strains.
- Summary
- VPS27/YNR006W is located on the right arm of chromosome XIV near the centromere between SWM2 nucleolar protein and ATG3 E2-like enzyme; dubious ORF YNR005C overlaps the 5' end of VPS27 on the opposite strand; coding sequence is 1869 amino acids long with 3 SNPs, 2 of which cause amino acid polymorphisms
Analyze Sequence
S288C only
BLASTN | BLASTP | Design Primers | Restriction Fragment Map | Restriction Fragment Sizes | Six-Frame Translation
S288C vs. other species
BLASTN vs. fungi | BLASTP at NCBI | BLASTP vs. fungi
S288C vs. other strains
Protein
Basic sequence-derived (length, molecular weight, isoelectric point) and experimentally-determined (median abundance, median absolute deviation) protein information. Click "Protein Details" for further information about the protein such as half-life, abundance, domains, domains shared with other proteins, protein sequence retrieval for various strains, physico-chemical properties, protein modification sites, and external identifiers for the protein.
- Summary
- Vps27p is 622 amino acids long, shorter-lived, low in abundance; contains 1 FYVE zinc finger and 2 ubiquitin-interacting motifs; sumoylated on K607, ubiquitinylated on 8 lysines, phosphorylated on 21 residues
- Length (a.a.)
- 622
- Mol. Weight (Da)
- 70951.2
- Isoelectric Point
- 4.94
- Median Abundance (molecules/cell)
- 2983 +/- 2811
- Half-life (hr)
- 7.9
Alleles
Curated mutant alleles for the specified gene, listed alphabetically. Click on the allele name to open the allele page. Click "SGD search" to view all alleles in search results.
View all VPS27 alleles in SGD search
Gene Ontology
GO Annotations consist of four mandatory components: a gene product, a term from one of the three Gene Ontology (GO) controlled vocabularies (Molecular Function, Biological Process, and Cellular Component), a reference, and an evidence code. SGD has manually curated and high-throughput GO Annotations, both derived from the literature, as well as computational, or predicted, annotations. Click "Gene Ontology Details" to view all GO information and evidence for this locus as well as biological processes it shares with other genes.
- Summary
- Subunit of ESCRT-0 complex capable of binding ubiquitin and phosphatidylinositol-3-phosphate; involved in protein targeting to vacuole and late endosome to vacuole transport; role in protein retention in Golgi apparatus and ATP export; localizes to endosome
View computational annotations
Molecular Function
- Manually Curated
- enables K48-linked polyubiquitin modification-dependent protein binding (IDA)
- enables K63-linked polyubiquitin modification-dependent protein binding (IDA)
- enables phosphatidylinositol-3-phosphate binding (IDA)
- enables ubiquitin binding (IDA)
- enables zinc ion binding (RCA)
Biological Process
- Manually Curated
- involved in ATP export (IMP)
- involved in cellular response to nitrogen starvation (IMP)
- involved in late endosome to vacuole transport (IMP)
- involved in microautophagy (IMP)
- involved in microlipophagy (IMP)
- involved in protein retention in Golgi apparatus (IMP)
- involved in protein targeting to vacuole (IMP, IPI)
Cellular Component
- Manually Curated
- located in endosome (IDA)
- part of ESCRT-0 complex (IPI)
- located in vacuolar membrane (IDA)
Complex
Macromolecular complex annotations are imported from the Complex Portal. These annotations have been derived from physical molecular interaction evidence extracted from the literature and cross-referenced in the entry, or by curator inference from information on homologs in closely related species or by inference from scientific background.
Phenotype
Phenotype annotations for a gene are curated single mutant phenotypes that require an observable (e.g., "cell shape"), a qualifier (e.g., "abnormal"), a mutant type (e.g., null), strain background, and a reference. In addition, annotations are classified as classical genetics or high-throughput (e.g., large scale survey, systematic mutation set). Whenever possible, allele information and additional details are provided. Click "Phenotype Details" to view all phenotype annotations and evidence for this locus as well as phenotypes it shares with other genes.
- Summary
- Non-essential gene; null mutant is defective in vacuolar protein sorting, resulting in decreased processing, missorting, and secretion of hydrolases; endocytic and other intracellular cargo is misdirected to the class E compartment; late endosomes are enlarged in null mutants, and mutants possess decreased stress, metal and toxin resistance; null mutants and overexpressors both have decreased growth rates
Classical Genetics
- null
- chemical compound accumulation: increased
- endocytosis: decreased
- endomembrane system morphology: abnormal
- metal resistance: decreased
- metal resistance: increased
- protein/peptide distribution: abnormal
- protein/peptide modification: abnormal
- protein/peptide modification: absent
- resistance to chemicals: absent
- resistance to chemicals: decreased
- stress resistance: decreased
- subcellular morphology: abnormal
- telomere length: decreased
- utilization of carbon source: decreased
- vacuolar transport: absent
- viability: decreased
- reduction of function
- unspecified
- overexpression
- null
- acid pH resistance: decreased
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chemical compound excretion: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- competitive fitness: increased
- desiccation resistance: decreased
- endocytosis: decreased
- endoplasmic reticulum morphology: abnormal
- heat sensitivity: increased
- innate thermotolerance: decreased
- metal resistance: decreased
- metal resistance: increased
- oxidative stress resistance: decreased
- protein/peptide distribution: abnormal
- resistance to chemicals: decreased
- resistance to chemicals: increased
- respiratory growth: decreased rate
- sporulation efficiency: decreased
- starvation resistance: decreased
- stress resistance: decreased
- toxin resistance: increased
- transposable element transposition: decreased
- utilization of carbon source: increased
- UV resistance: decreased
- vacuolar morphology: abnormal
- vegetative growth: decreased
- viable
- overexpression
- activation
Large-scale Survey
Disease
Disease Annotations consist of three mandatory components: a gene product, a term from the Disease Ontology (DO) controlled vocabulary and an evidence code. SGD provides manually curated DO Annotations derived from the literature. Click "Disease Details" to view all Disease information and evidence for this locus as well as diseases it shares with other genes.
- Summary
- Yeast VPS27 is homologous to human HGS, and has been used to study Parkinson's disease risk
Manually Curated
Interaction
Interaction annotations are curated by BioGRID and include physical or genetic interactions observed between at least two genes. An interaction annotation is composed of the interaction type, name of the interactor, assay type (e.g., Two-Hybrid), annotation type (e.g., manual or high-throughput), and a reference, as well as other experimental details. Click "Interaction Details" to view all interaction annotations and evidence for this locus, including an interaction visualization.
- Summary
- Vps27p interacts physically with proteins involved in regulation of cell cycle; VPS27 interacts genetically with genes involved in transcription
1207 total interactions for 775 unique genes
Physical Interactions
- Affinity Capture-MS: 18
- Affinity Capture-RNA: 3
- Affinity Capture-Western: 19
- Biochemical Activity: 15
- Co-crystal Structure: 5
- Co-localization: 1
- PCA: 7
- Protein-peptide: 4
- Proximity Label-MS: 1
- Reconstituted Complex: 12
- Two-hybrid: 8
Genetic Interactions
- Dosage Growth Defect: 2
- Dosage Lethality: 4
- Dosage Rescue: 1
- Negative Genetic: 889
- Phenotypic Enhancement: 38
- Phenotypic Suppression: 11
- Positive Genetic: 119
- Synthetic Growth Defect: 36
- Synthetic Lethality: 5
- Synthetic Rescue: 9
Regulation
The number of putative Regulators (genes that regulate it) and Targets (genes it regulates) for the given locus, based on experimental evidence. This evidence includes data generated through high-throughput techniques. Click "Regulation Details" to view all regulation annotations, shared GO enrichment among regulation Targets, and a regulator/target diagram for the locus.
- Summary
- VPS27 promoter is bound by Yap6p in response to heat; Vps27 protein activity is inhibited by TORC1
- Regulators
- 3
- Targets
- 0
Expression
Expression data are derived from records contained in the Gene Expression Omnibus (GEO), and are first log2 transformed and normalized. Referenced datasets may contain one or more condition(s), and as a result there may be a greater number of conditions than datasets represented in a single clickable histogram bar. The histogram division at 0.0 separates the down-regulated (green) conditions and datasets from those that are up-regulated (red). Click "Expression Details" to view all expression annotations and details for this locus, including a visualization of genes that share a similar expression pattern.
Summary Paragraph
A summary of the locus, written by SGD Biocurators following a thorough review of the literature. Links to gene names and curated GO terms are included within the Summary Paragraphs.
Last Updated: 2024-07-11
Literature
All manually curated literature for the specified gene, organized into topics according to their relevance to the gene (Primary Literature, Additional Literature, or Review). Click "Literature Details" to view all literature information for this locus, including shared literature between genes.