VPS16 / YPL045W Overview
- Standard Name
- VPS16 1 2
- Systematic Name
- YPL045W
- SGD ID
- SGD:S000005966
- Aliases
- SVL6 6 , VAM9 7 , VPT16 1 , CVT15 8
- Feature Type
- ORF , Verified
- Description
- Subunit of the HOPS and the CORVET complexes; part of the Class C Vps complex essential for membrane docking and fusion at Golgi-to-endosome and endosome-to-vacuole protein transport stages 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.
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.
- Length (a.a.)
- 798
- Mol. Weight (Da)
- 92740.1
- Isoelectric Point
- 7.07
- Median Abundance (molecules/cell)
- 1798 +/- 714
- Half-life (hr)
- 12.0
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 VPS16 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
- Phosphatidylinositol-binding subunit of CORVET endosomal tethering complex and HOPS tethering complex; involved in vacuole fusion, Golgi-to-endosome and endosome-to-vacuole transport, regulation of SNARE complex assembly, and vesicle tethering; localizes to vacuole membrane
View computational annotations
Molecular Function
- Manually Curated
- contributes to phosphatidylinositol binding (IDA)
Biological Process
- Manually Curated
- involved in Golgi to endosome transport (IMP)
- involved in late endosome to vacuole transport (IMP)
- involved in protein targeting to vacuole (IMP)
- involved in regulation of SNARE complex assembly (IDA)
- involved in vacuole fusion, non-autophagic (IDA, IMP)
- involved in vacuole organization (IMP)
- involved in vesicle tethering (IDA)
Cellular Component
- Manually Curated
- part of CORVET complex (IDA)
- located in fungal-type vacuole membrane (IDA)
- part of HOPS complex (IPI)
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
- VPS16/YPL045W is an essential gene in Sigma1278b and non-essential gene in S288C. Null mutants exhibit a wide range of phenotypic changes including decreased acid and alkaline pH resistance, decreased biofilm formation, altered chemical compound accumulation and excretion, decreased chronological lifespan, decreased competitive fitness, decreased desiccation resistance, decreased endocytosis, increased heat sensitivity, decreased hyperosmotic stress resistance, decreased killer toxin resistance, abnormal lipid particle morphology, decreased metal resistance, decreased mitophagy, decreased oxidative stress resistance, abnormal protein/peptide distribution and modification, altered resistance to chemicals, decreased respiratory growth, decreased reticulophagy, decreased stress resistance, decreased toxin resistance, decreased transposable element transposition, decreased utilization of various carbon and nitrogen sources, abnormal vacuolar morphology, and decreased vegetative growth rate. Reduction of function mutants exhibit decreased hyperosmotic stress resistance, absent vacuolar morphology, and abnormal vacuolar transport.
Classical Genetics
- null
- autophagy: absent
- autophagy: decreased
- chemical compound accumulation: increased
- endocytosis: absent
- hydrostatic pressure resistance: decreased
- metal resistance: decreased
- protein/peptide accumulation: increased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- resistance to chemicals: decreased
- small molecule transport: decreased
- vacuolar morphology: abnormal
- reduction of function
- null
- acid pH resistance: decreased
- alkaline pH resistance: decreased
- biofilm formation: decreased
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chemical compound excretion: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- desiccation resistance: decreased
- endocytosis: decreased
- heat sensitivity: increased
- hyperosmotic stress resistance: decreased
- inviable
- killer toxin resistance: decreased
- lipid particle morphology: abnormal
- metal resistance: decreased
- mitophagy: decreased
- oxidative stress resistance: decreased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- resistance to chemicals: decreased
- resistance to chemicals: normal
- respiratory growth: absent
- respiratory growth: decreased rate
- reticulophagy: decreased
- stress resistance: decreased
- toxin resistance: decreased
- transposable element transposition: decreased
- utilization of carbon source: decreased
- utilization of nitrogen source: decreased rate
- vacuolar morphology: abnormal
- vegetative growth: decreased
- vegetative growth: decreased rate
- viable
Large-scale Survey
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.
166 total interactions for 69 unique genes
Physical Interactions
- Affinity Capture-MS: 48
- Affinity Capture-RNA: 2
- Affinity Capture-Western: 45
- Biochemical Activity: 1
- Co-fractionation: 1
- Co-purification: 5
- PCA: 2
- Reconstituted Complex: 18
- Two-hybrid: 9
Genetic Interactions
- Dosage Rescue: 2
- Negative Genetic: 9
- Phenotypic Enhancement: 4
- Phenotypic Suppression: 3
- Synthetic Growth Defect: 10
- Synthetic Lethality: 7
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.
- Regulators
- 2
- 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.
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.